Citrus Sinensis ID: 042750

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------
Protein Sequence
MDLVSKHMIHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHKPIRRSFSMDSSADPKLYLAIQEAVQQKRQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP
Secondary Structure (PSIPRED)
cccccHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccccccccccccccccccccccccccccHHHHHHccEEEEcccccccccccccccccEEccccccccEEccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHccEEEEEcccccccccccccEEEEEEccccccccEEEcccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccEEEEEEccccccccccccccccccccccccEEEEEcccccccccEEEEcccccc
Coil and Loop (DISEMBL)
MDLVSKHmihasqalppirspsnsifgsrsshnsdtsfpVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIahspaletrgldeAVIRAIpifqfkkkasrdfgersfCECAVCLNEfqeneklriipncghvfhIDCIDVWlqsnancplcrtsissttttpttflpfdriiapsstpqdpspytenvinsdeDFVVIELgnhhstdqtLLATQErlnsgelsghsispsprklDQRFVHKRARKLHkpirrsfsmdssadpKLYLAIQEAVQQKRqvteaspiegcssrskrfffnfghgsrgsrsavlpvysep
Flexible Loop (DISEMBL)
MDLVSKHMIhasqalppirspsNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLiahspaletrgldEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGElsghsispsprkldqrFVHKRarklhkpirrsfsmdssaDPKLYLAIQEAVQQKRQVteaspiegcssrSKRFFFnfghgsrgsrsavlpvysep
Low Complexity Region (SEG)
MDLVSKHMIHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDIlrrfslsrnrrnlEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRtsissttttpttFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHKPIRRSFSMDSSADPKLYLAIQEAVQQKRQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP
Disordered region (IsUnstruct)
*************************************FPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR****************************************EDFVVIELGN**************************************************************YLAI*************************FFFNFG*****************
Disordered Region (DISOPRED)
***VSKHMI******************************VIAIAIVGILATGFLLVSYYIFVIKCCLNWHR******************************LDEAVIRAIPIFQFKKK*******RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS*********************************************************************************************************************************************************LPVYS**
Disordered Region (DISEMBL)
MDLVSKHMIHASQALPPIRSPSN***********DTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHKPIRRSFSMDSSADPKLYLAIQEAV*************GCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP
Disordered Region (DISPRO)
***********************************TSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHR****************************RGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI*********************************************************************************RFVHKRARKLHKPIRRSFSMDSSADPKLYLAIQEA*******************SKRFFFNFGHGSRGSRSAV*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDLVSKHMIHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHKPIRRSFSMDSSADPKLYLAIQEAVQQKRQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	337	2.2.26 [Sep-21-2011]
Q9LSW9	375	RING-H2 finger protein AT	yes	no	0.768	0.690	0.517	3e-80
P93823	381	RING-H2 finger protein AT	no	no	0.884	0.782	0.476	9e-76
Q9LF64	362	RING-H2 finger protein AT	no	no	0.382	0.356	0.384	2e-23
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.501	0.474	0.325	3e-23
P0C041	310	Putative RING-H2 finger p	no	no	0.480	0.522	0.365	1e-22
Q7XLY8	383	E3 ubiquitin-protein liga	no	no	0.845	0.744	0.264	1e-21
Q84W40	404	RING-H2 finger protein AT	no	no	0.418	0.349	0.346	2e-20
Q8L9T5	304	RING-H2 finger protein AT	no	no	0.305	0.338	0.418	5e-20
Q8LFY8	413	RING-H2 finger protein AT	no	no	0.525	0.428	0.341	7e-20
Q8W571	323	RING-H2 finger protein AT	no	no	0.379	0.396	0.345	1e-19

>sp|Q9LSW9|ATL16_ARATH RING-H2 finger protein ATL16 OS=Arabidopsis thaliana GN=ATL16 PE=2 SV=1

 Score =  298 bits (764), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 162/313 (51%), Positives = 214/313 (68%), Gaps = 54/313 (17%)

Query: 31  SHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEH- 89
           + ++ TSFP++A+A++GILAT FLLVSYY+FVIKCCLNWHRIDIL RFSLSR RRN +  
Sbjct: 27  ASSTGTSFPILAVAVIGILATAFLLVSYYVFVIKCCLNWHRIDILGRFSLSRRRRNDQDP 86

Query: 90  LIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFG----------ERSFCECAVCLNEFQ 139
           L+ +SP L +RGLDE+VIRAIPIF+FKK+  ++ G          E+   EC+VCL+EFQ
Sbjct: 87  LMVYSPELRSRGLDESVIRAIPIFKFKKRYDQNDGVFTGEGEEEEEKRSQECSVCLSEFQ 146

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTP 199
           + EKLRIIPNC H+FHIDCIDVWLQ+NANCPLCRT +S  T+ P      DR+ APS++P
Sbjct: 147 DEEKLRIIPNCSHLFHIDCIDVWLQNNANCPLCRTRVSCDTSFPP-----DRVSAPSTSP 201

Query: 200 QDPSPYTENVINSDEDFVVIELGNHHSTDQT------LLATQERLNSGEL----SGHSIS 249
           ++       ++  + ++VVIELG+   +D+       LL  QER NSG L    + +SIS
Sbjct: 202 ENLV-----MLRGENEYVVIELGSSIGSDRDSPRHGRLLTGQERSNSGYLLNENTQNSIS 256

Query: 250 PSPRKLDQRFVHKRARKLHK-----------------------PIRRSFSMDSSADPKLY 286
           PSP+KLD+  + ++ RKLHK                       PIRRS SMDSSAD +LY
Sbjct: 257 PSPKKLDRGGLPRKFRKLHKMTSMGDECIDIRRGKDEQFGSIQPIRRSISMDSSADRQLY 316

Query: 287 LAIQEAVQQKRQV 299
           LA+QEA+++ R+V
Sbjct: 317 LAVQEAIRKNREV 329

Arabidopsis thaliana (taxid: 3702)

>sp|P93823|ATL1_ARATH RING-H2 finger protein ATL1 OS=Arabidopsis thaliana GN=ATL1 PE=2 SV=1

 Score =  283 bits (725), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 170/357 (47%), Positives = 217/357 (60%), Gaps = 59/357 (16%)

Query: 31  SHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHL 90
           + +S T+FP++AIA++GILAT FLLVSYYIFVIKCCLNWH+IDI RR    R   +   L
Sbjct: 34  TSSSGTNFPILAIAVIGILATAFLLVSYYIFVIKCCLNWHQIDIFRR---RRRSSDQNPL 90

Query: 91  IAHSPALETRGLDEAVIRAIPIFQFKKK---ASRDFGERSFCECAVCLNEFQENEKLRII 147
           + +SP    RGLDE+ IRAIP+F+FKK+   A  +   ++  EC+VCLNEFQE+EKLRII
Sbjct: 91  MIYSPHEVNRGLDESAIRAIPVFKFKKRDVVAGEEDQSKNSQECSVCLNEFQEDEKLRII 150

Query: 148 PNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTE 207
           PNC HVFHIDCID+WLQ NANCPLCRTS+S   +        D I APSS P++ SP++ 
Sbjct: 151 PNCCHVFHIDCIDIWLQGNANCPLCRTSVSCEAS-----FTLDLISAPSS-PRENSPHSR 204

Query: 208 N-------VINSDEDFVVIELGNHHSTDQ------TLLATQERLNSGELSG----HSISP 250
           N       V+  D+DFVVIELG  +  ++        L  QER+ S E+S      S+SP
Sbjct: 205 NRNLEPGLVLGGDDDFVVIELGASNGNNRESVRNIDFLTEQERVTSNEVSTGNSPKSVSP 264

Query: 251 SPRKLDQRFVHKRARKLHK----------------------PIRRSFSMDSSADPKLYLA 288
            P K   R ++K+ RK HK                      PIRRS SMDSS D +LYLA
Sbjct: 265 LPIKFGNRGMYKKERKFHKVTSMGDECIDTRGKDGHFGEIQPIRRSISMDSSVDRQLYLA 324

Query: 289 IQEAVQQK-RQVTEASPIEGCSSRS-------KRFFFNFGHGSRGSRSAVLPVYSEP 337
           +QE + ++ RQ+  A   E  SS         KR FF+FG       S++LPVY EP
Sbjct: 325 VQEEISRRNRQIPVAGDGEDSSSSGGGNSRVMKRCFFSFGSSRTSKSSSILPVYLEP 381

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LF64|ATL52_ARATH RING-H2 finger protein ATL52 OS=Arabidopsis thaliana GN=ATL52 PE=2 SV=1

 Score =  110 bits (275), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 53/138 (38%), Positives = 87/138 (63%), Gaps = 9/138 (6%)

Query: 43  IAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRG- 101
           IA++GIL +  +LVSYY  + K C   H+       +L+ N    E   + +  + T G 
Sbjct: 59  IALIGILTSALILVSYYTLISKYCHRHHQTSSSETLNLNHNG---EGFFSSTQRISTNGD 115

Query: 102 -LDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCID 160
            L+E++I++I ++++K  +   F + S  +C+VCL+EF+ENE LR++P C H FH+ CID
Sbjct: 116 GLNESMIKSITVYKYK--SGDGFVDGS--DCSVCLSEFEENESLRLLPKCNHAFHLPCID 171

Query: 161 VWLQSNANCPLCRTSISS 178
            WL+S++NCPLCR  ++ 
Sbjct: 172 TWLKSHSNCPLCRAFVTG 189

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score =  109 bits (273), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 70/215 (32%), Positives = 112/215 (52%), Gaps = 46/215 (21%)

Query: 41  IAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETR 100
           + IA++GILA+ F+LVSYY  + K C   HR    RR + S       + I+     +  
Sbjct: 59  LLIALIGILASAFILVSYYTLISKYC---HR----RRHNSSSTSAAAINRISSDYTWQGT 111

Query: 101 G---------------------LDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQ 139
                                 LDE++I++I +++++K     F E S  +C+VCL+EFQ
Sbjct: 112 NNNNNNGATNPNQTIGGGGGDGLDESLIKSITVYKYRKMDG--FVESS--DCSVCLSEFQ 167

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTP 199
           ENE LR++P C H FH+ CID WL+S++NCPLCR  I +++      L   +I+  +   
Sbjct: 168 ENESLRLLPKCNHAFHVPCIDTWLKSHSNCPLCRAFIVTSSAVEIVDLTNQQIVTEN--- 224

Query: 200 QDPSPYTENVINSDEDFVVI---ELGNHHSTDQTL 231
                   N I++ +D VV+   +L N  S ++T+
Sbjct: 225 --------NSISTGDDSVVVVNLDLENSRSRNETV 251

Arabidopsis thaliana (taxid: 3702)

>sp|P0C041|ATL53_ARATH Putative RING-H2 finger protein ATL53 OS=Arabidopsis thaliana GN=ATL53 PE=3 SV=2

 Score =  107 bits (268), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 69/189 (36%), Positives = 101/189 (53%), Gaps = 27/189 (14%)

Query: 41  IAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSP----- 95
           + IAI GI AT FLL +YY  V K C N    D     +    R ++  L  +SP     
Sbjct: 61  LVIAIFGIFATAFLLAAYYTLVSKYCAN----DTTNEAASESGRSDI-ILDVNSPERGDQ 115

Query: 96  ----ALE--TRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPN 149
               ALE  T GLD+ +I+ I  F+ KK   ++  + +  +C++CL EF E+E LR++P 
Sbjct: 116 DDPFALESSTAGLDDTLIKKIGFFKLKKH--QNGFKINGTDCSICLGEFNEDESLRLLPK 173

Query: 150 CGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENV 209
           C H FH+ CID WL+S++NCPLCR  I      PTT  P   ++       +   +T NV
Sbjct: 174 CNHTFHVVCIDRWLKSHSNCPLCRAKI----IVPTTQQPEHHVVV-----MNLDRFTSNV 224

Query: 210 INSDEDFVV 218
            +++ + VV
Sbjct: 225 GSAEGNVVV 233

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XLY8|ATL41_ORYSJ E3 ubiquitin-protein ligase Os04g0590900 OS=Oryza sativa subsp. japonica GN=Os04g0590900 PE=2 SV=2

 Score =  104 bits (259), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 85/321 (26%), Positives = 143/321 (44%), Gaps = 36/321 (11%)

Query: 25  IFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCC--LNWHRIDILRRFSLSR 82
           + G+ +  +S   F  + IAI+G+LA+ FLLVSYY F+ K C  ++  R  +    S   
Sbjct: 42  VAGTSADDSSGPVFSPLVIAIIGVLASAFLLVSYYTFISKYCGTVSSLRGRVFGSSSGGA 101

Query: 83  NRRNLEHLIAHSPALETR-----------GLDEAVIRAIPIFQFKKKASRDFGERSFCEC 131
                          ++R           GLDE +I  I + +++    R  G     +C
Sbjct: 102 AYGGGAGSGGRHGHGQSRSHESWNVSPPSGLDETLINKITVCKYR----RGDGFVHTTDC 157

Query: 132 AVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDR 191
           +VCL EF + E LR++P C H FH  CID WL+S++NCPLCR +I+           F  
Sbjct: 158 SVCLGEFSDGESLRLLPRCSHAFHQQCIDTWLKSHSNCPLCRANIT-----------FVT 206

Query: 192 IIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPS 251
           +   S  P+  +P      N+ E  VV++   +   +Q    ++      +   H     
Sbjct: 207 VGLASPEPEGCAPGETGGDNTHEVVVVMDGLENLCEEQQEAVSRASTADDD---HDAKDV 263

Query: 252 PRKLDQRFVHKRARKLHKPIRR-SFSMDSSADPKLYLA--IQEAVQQKRQVT-EASPIEG 307
              +++       R+   P +R + S D   D ++ +A  +QE+++ +     E+  + G
Sbjct: 264 AEGMEEANGAAEIREEGSPPKRGASSFDLHRDNRMCIADVLQESMEDELTAARESGLLAG 323

Query: 308 CSSRSKRFFFNFGHGSRGSRS 328
            +  S+R       G RG RS
Sbjct: 324 GAGTSRRCHGENSKG-RGGRS 343

Possesses E3 ubiquitin-protein ligase in vitro.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84W40|ATL11_ARATH RING-H2 finger protein ATL11 OS=Arabidopsis thaliana GN=ATL11 PE=2 SV=2

 Score =  100 bits (248), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 79/150 (52%), Gaps = 9/150 (6%)

Query: 27  GSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRN 86
           GS  S +S    P +AI ++ +L + F  + ++   I+ CL        R   +     N
Sbjct: 49  GSDVSGDSSRFDPTMAILMI-VLVSVFFFLGFFSVYIRRCLE-------RVMGMDYGNPN 100

Query: 87  LEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRI 146
                  +   + RGLD ++I   P FQ+    +   G+ +  EC+VCLNEF+++E LR+
Sbjct: 101 DAGNWLATNRQQARGLDASIIETFPTFQYSTVKTLRIGKEAL-ECSVCLNEFEDDETLRL 159

Query: 147 IPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
           IP C HVFH  CID WL+S+  CPLCR  +
Sbjct: 160 IPKCCHVFHPGCIDAWLRSHTTCPLCRADL 189

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9T5|ATL2_ARATH RING-H2 finger protein ATL2 OS=Arabidopsis thaliana GN=ATL2 PE=2 SV=2

 Score = 99.0 bits (245), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 46/110 (41%), Positives = 69/110 (62%), Gaps = 7/110 (6%)

Query: 92  AHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCG 151
           A +  + +RGLD  VI+++P+F F  +  +D       ECAVCL+EF+E+E  R++PNC 
Sbjct: 85  AATSVVASRGLDPNVIKSLPVFTFSDETHKDP-----IECAVCLSEFEESETGRVLPNCQ 139

Query: 152 HVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDR--IIAPSSTP 199
           H FH+DCID+W  S++ CPLCR+ + S     +T    +R  +IA  S P
Sbjct: 140 HTFHVDCIDMWFHSHSTCPLCRSLVESLAGIESTAAAREREVVIAVDSDP 189

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LFY8|ATL54_ARATH RING-H2 finger protein ATL54 OS=Arabidopsis thaliana GN=ATL54 PE=2 SV=2

 Score = 98.6 bits (244), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 104/202 (51%), Gaps = 25/202 (12%)

Query: 31  SHNSDTSFPVIAI-----AIVGILATGFLLVSYYIF--VIKCCLNWHRIDILRRFSLS-- 81
           S +S +S   I+I     A++ IL TGF LV+ +    V +     ++ D     ++   
Sbjct: 73  SQDSSSSLDAISIITITGAVLAILLTGFFLVAKFFSDSVNRVNQGTYQSDNEDNDTVMEE 132

Query: 82  --RNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQ 139
             ++R  ++H I     + T GL +++I +I I  +K+       ER+  +C VCLNEF+
Sbjct: 133 EFQDREQVDHPIW---LIRTTGLQQSIINSITICNYKRGDG--LIERT--DCPVCLNEFE 185

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS-TTTTPTTFLPFDRIIAPSST 198
           E+E LR++P C H FHI CID WL S+ NCPLCR  I+  + TTP    P +       T
Sbjct: 186 EDESLRLLPKCNHAFHISCIDTWLSSHTNCPLCRAGIAMISVTTPRYSGPVE------VT 239

Query: 199 PQDPSPYTENVINSDEDFVVIE 220
           P     + EN    +ED   IE
Sbjct: 240 PGGSGSHLENDGVDEEDHGEIE 261

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W571|ATL32_ARATH RING-H2 finger protein ATL32 OS=Arabidopsis thaliana GN=ATL32 PE=2 SV=3

 Score = 97.8 bits (242), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/139 (34%), Positives = 75/139 (53%), Gaps = 11/139 (7%)

Query: 45  IVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDE 104
           +  +L T F L       I+ C   +     R F   RNR       A+  +    GLD 
Sbjct: 49  VFAVLVTLFFLTGLLSVYIRHCARSNPDSSTRYF---RNR-------ANDGSSRRGGLDN 98

Query: 105 AVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ 164
           AV+ + P+F +        G +   ECA+CLNE +++E +R++P C H+FHIDCID WL 
Sbjct: 99  AVVESFPVFAYSSVKESKIGSKDL-ECAICLNELEDHETVRLLPICNHLFHIDCIDTWLY 157

Query: 165 SNANCPLCRTSISSTTTTP 183
           S+A CP+CR+++++ +  P
Sbjct: 158 SHATCPVCRSNLTAKSNKP 176

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	337
224107873	340	predicted protein [Populus trichocarpa]	0.910	0.902	0.693	1e-119
147775862	419	hypothetical protein VITISV_043412 [Viti	0.979	0.787	0.668	1e-115
359477789	359	PREDICTED: RING-H2 finger protein ATL16-	0.979	0.919	0.668	1e-114
255576814	376	ring finger protein, putative [Ricinus c	0.979	0.877	0.637	1e-113
356533787	367	PREDICTED: RING-H2 finger protein ATL16-	0.964	0.885	0.580	4e-92
356574754	364	PREDICTED: RING-H2 finger protein ATL16-	0.964	0.892	0.579	4e-91
225437852	351	PREDICTED: RING-H2 finger protein ATL1-l	0.925	0.888	0.510	1e-89
297795079	379	hypothetical protein ARALYDRAFT_494656 [	0.860	0.765	0.502	4e-80
297848660	382	hypothetical protein ARALYDRAFT_887598 [	0.875	0.772	0.484	1e-78
15239865	375	RING-H2 finger protein ATL16 [Arabidopsi	0.768	0.690	0.517	2e-78

>gi|224107873|ref|XP_002314635.1| predicted protein [Populus trichocarpa] gi|222863675|gb|EEF00806.1| predicted protein [Populus trichocarpa]

 Score =  436 bits (1120), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 235/339 (69%), Positives = 271/339 (79%), Gaps = 32/339 (9%)

Query: 23  NSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSR 82
           +SIFG R+  +SDTSFP+IAIAI+GILAT  LLVSYYIFVIKCCLNWHRID+LRRFSLSR
Sbjct: 8   SSIFGPRT-QSSDTSFPIIAIAIIGILATALLLVSYYIFVIKCCLNWHRIDLLRRFSLSR 66

Query: 83  NRRNLEHLIAHSP-ALETRGLDEAVIRAIPIFQFKKKAS--RDFGERSFCECAVCLNEFQ 139
           NR + + L+A+SP A+E+RGLDE+VIR+IP+F+FKK+ +  R+ GERSFCECAVCLNEFQ
Sbjct: 67  NRNHEDPLMAYSPSAIESRGLDESVIRSIPVFKFKKEGNNVRNVGERSFCECAVCLNEFQ 126

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTP 199
           E EKLR IPNC HVFHIDCIDVWLQSNANCPLCRTSISSTT       P D IIAPSSTP
Sbjct: 127 EAEKLRRIPNCSHVFHIDCIDVWLQSNANCPLCRTSISSTTR-----FPIDHIIAPSSTP 181

Query: 200 QDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRF 259
            D +PY+E+V+  DED+VVIEL NH+STDQTLLA QERLNSGELS  SISPSPRK++Q  
Sbjct: 182 HDANPYSESVMGGDEDYVVIELSNHNSTDQTLLAAQERLNSGELSARSISPSPRKIEQGV 241

Query: 260 VHKRARKLHK----------------------PIRRSFSMDSSADPKLYLAIQEAVQQKR 297
            HK+AR L+K                      PIRRSFSMDSSAD +LYL+IQE VQQ R
Sbjct: 242 GHKKARNLNKVTSMGDECIDTRGKDDQFGLIQPIRRSFSMDSSADRQLYLSIQEIVQQSR 301

Query: 298 QVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSE 336
           QVTE S +EGCS R++R FF+FGHG RGSRS+VLPVY E
Sbjct: 302 QVTEVSSVEGCSGRARRAFFSFGHG-RGSRSSVLPVYLE 339

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775862|emb|CAN69298.1| hypothetical protein VITISV_043412 [Vitis vinifera]

 Score =  419 bits (1077), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 240/359 (66%), Positives = 274/359 (76%), Gaps = 29/359 (8%)

Query: 1   MDLVSKHM-IHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYY 59
           MDLVS    IH SQA  PI+S ++S+  S  SH+SDTSFP+IAIA++GILAT FLLVSYY
Sbjct: 68  MDLVSTDSSIHGSQAFSPIKSQASSVLPS-PSHSSDTSFPIIAIAVIGILATAFLLVSYY 126

Query: 60  IFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKA 119
           IFVIKCCLNWHRID+LRRFS SR+R   + L+ +SPA+E+RGLDE+VIR+IPIFQF+K  
Sbjct: 127 IFVIKCCLNWHRIDLLRRFSFSRSRHREDPLMVYSPAIESRGLDESVIRSIPIFQFRKGG 186

Query: 120 SRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST 179
            R+FGERS CECAVCLNEFQE EKLRIIPNC H+FHIDCIDVWLQSNANCPLCRTSIS  
Sbjct: 187 GREFGERSHCECAVCLNEFQEEEKLRIIPNCSHIFHIDCIDVWLQSNANCPLCRTSIS-- 244

Query: 180 TTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLN 239
            TTP    P  +IIAPSS+PQDPSPY  N I  DEDFVVIELGN  S D +LL   ERLN
Sbjct: 245 -TTPR--FPVHQIIAPSSSPQDPSPYANNYIGGDEDFVVIELGNDSSADSSLLRPPERLN 301

Query: 240 SGELSGHSISPSPRKLDQRFVHKRARKLH---------------------KPIRRSFSMD 278
           S ELS  SISPSPRKL+QR V K+ARK H                     +PIRRSFSMD
Sbjct: 302 SRELSAPSISPSPRKLEQRIVPKKARKFHHVASMGDECIDTRGKDDQFSIQPIRRSFSMD 361

Query: 279 SSADPKLYLAIQEAVQQKRQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP 337
           SS D +LYLAIQE +QQ R V++ SP EGCSSR +R FF+FGHG RGSRSAVLP+  +P
Sbjct: 362 SSNDRQLYLAIQEILQQNRPVSDFSPSEGCSSRFRRSFFSFGHG-RGSRSAVLPIPMDP 419

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477789|ref|XP_002281024.2| PREDICTED: RING-H2 finger protein ATL16-like [Vitis vinifera]

 Score =  417 bits (1073), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 240/359 (66%), Positives = 274/359 (76%), Gaps = 29/359 (8%)

Query: 1   MDLVSKHM-IHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYY 59
           MDLVS    IH SQA  PI+S ++S+  S  SH+SDTSFP+IAIA++GILAT FLLVSYY
Sbjct: 8   MDLVSTDSSIHGSQAFSPIKSQASSVLPS-PSHSSDTSFPIIAIAVIGILATAFLLVSYY 66

Query: 60  IFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKA 119
           IFVIKCCLNWHRID+LRRFS SR+R   + L+ +SPA+E+RGLDE+VIR+IPIFQF+K  
Sbjct: 67  IFVIKCCLNWHRIDLLRRFSFSRSRHPEDPLMVYSPAIESRGLDESVIRSIPIFQFRKGG 126

Query: 120 SRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST 179
            R+FGERS CECAVCLNEFQE EKLRIIPNC H+FHIDCIDVWLQSNANCPLCRTSIS  
Sbjct: 127 GREFGERSHCECAVCLNEFQEEEKLRIIPNCSHIFHIDCIDVWLQSNANCPLCRTSIS-- 184

Query: 180 TTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLN 239
            TTP    P  +IIAPSS+PQDPSPY  N I  DEDFVVIELGN  S D +LL   ERLN
Sbjct: 185 -TTPR--FPVHQIIAPSSSPQDPSPYANNYIGGDEDFVVIELGNDSSADSSLLRPPERLN 241

Query: 240 SGELSGHSISPSPRKLDQRFVHKRARKLH---------------------KPIRRSFSMD 278
           S ELS  SISPSPRKL+QR V K+ARK H                     +PIRRSFSMD
Sbjct: 242 SRELSAPSISPSPRKLEQRIVPKKARKFHHVASMGDECIDTRGKDDQFSIQPIRRSFSMD 301

Query: 279 SSADPKLYLAIQEAVQQKRQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPVYSEP 337
           SS D +LYLAIQE +QQ R V++ SP EGCSSR +R FF+FGHG RGSRSAVLP+  +P
Sbjct: 302 SSNDRQLYLAIQEILQQNRPVSDFSPSEGCSSRFRRSFFSFGHG-RGSRSAVLPIPMDP 359

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576814|ref|XP_002529293.1| ring finger protein, putative [Ricinus communis] gi|223531217|gb|EEF33062.1| ring finger protein, putative [Ricinus communis]

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 244/383 (63%), Positives = 285/383 (74%), Gaps = 53/383 (13%)

Query: 1   MDLVSKHMIHASQALPPIRSPS--NSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSY 58
           MDLVSK+  + SQ+LPPI +PS  NS F +  SH+SDTSFP+IAIAI+GILAT FLLVSY
Sbjct: 1   MDLVSKN--YGSQSLPPITNPSSANSFFNNPHSHSSDTSFPIIAIAIIGILATAFLLVSY 58

Query: 59  YIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKK 118
           YIFVIKCCLNWHRIDILRRFSLSRNR   + L+ +SPA+E RGLDE+VIR+IPIF+FKK+
Sbjct: 59  YIFVIKCCLNWHRIDILRRFSLSRNRNQEDPLMGYSPAMENRGLDESVIRSIPIFKFKKE 118

Query: 119 --ASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
              S D G R+  ECAVCLNEFQENEKLRIIPNC HVFHIDCIDVWLQ+NANCPLCR SI
Sbjct: 119 GNGSGDIGGRTLSECAVCLNEFQENEKLRIIPNCSHVFHIDCIDVWLQNNANCPLCRNSI 178

Query: 177 SSTTTTPTTFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELG---------NHHST 227
           SSTT +    +PFDRIIAPSS+PQDP+PY+E++I  DED+VVIELG         +H+  
Sbjct: 179 SSTTRS----IPFDRIIAPSSSPQDPNPYSESLIGGDEDYVVIELGNINNNIINNSHNPA 234

Query: 228 DQTLLATQERL-NSGELS-GHSISPSPR--KLDQR----FVHKRARKLHK---------- 269
           DQTLLA QERL NSGELS    ISPS R  KL+QR     V K++RK  K          
Sbjct: 235 DQTLLAAQERLMNSGELSIARPISPSSRRQKLEQRGSSGAVQKKSRKFSKLTSMGDECID 294

Query: 270 -----------PIRRSFSMDSSADPKLYLAIQEAVQQKRQVT---EASPIEGCSS-RSKR 314
                      PIRRSFSMDSSAD +LYL+IQE + Q RQ     + SPIEGCS+ R +R
Sbjct: 295 IRGKDDQFAIQPIRRSFSMDSSADRQLYLSIQEIILQSRQQPIDHQVSPIEGCSNGRPRR 354

Query: 315 FFFNFGHGSRGSRSAVLPVYSEP 337
            FF+FGHG RGSR++VLPV+ EP
Sbjct: 355 TFFSFGHG-RGSRNSVLPVFLEP 376

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356533787|ref|XP_003535440.1| PREDICTED: RING-H2 finger protein ATL16-like [Glycine max]

 Score =  344 bits (882), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 220/379 (58%), Positives = 258/379 (68%), Gaps = 54/379 (14%)

Query: 1   MDLVSK-HMIHASQ------ALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGF 53
           MDLVS+ ++I+ SQ      AL PI SP +SIF     H S TSFP+IAIAI+GI+AT F
Sbjct: 1   MDLVSRRYLIYVSQHGSQPQALSPITSPGSSIFHPHQ-HASSTSFPIIAIAIIGIMATAF 59

Query: 54  LLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIF 113
           LLVSYYIFVIKCCLNWHRID+LRRFS SR R +      +SPA +TRGLDEA+IR IP+ 
Sbjct: 60  LLVSYYIFVIKCCLNWHRIDVLRRFSPSRRREDPPP--TYSPATDTRGLDEALIRLIPVT 117

Query: 114 QFKKKAS--RDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPL 171
           Q+K +    RDFGER FCECAVCLNEFQE+EKLR+IPNC HVFHIDCIDVWLQSNANCPL
Sbjct: 118 QYKAQQGDDRDFGERRFCECAVCLNEFQEDEKLRVIPNCSHVFHIDCIDVWLQSNANCPL 177

Query: 172 CRTSISSTTTTPTTFLPFDRII----APSSTPQDPSPYTENVINSDEDFVVIELGNHHST 227
           CRTSIS T+         D+++    + SS P D +P  EN+I  DEDFVVIELG+ H  
Sbjct: 178 CRTSISLTSR-----FHIDQLLTLRPSSSSYPHDQTPPRENLIGGDEDFVVIELGSDHDR 232

Query: 228 DQTLLATQERLNSGELSGHSISP-SPRK-LDQRFVH-KRARKLHK--------------- 269
            Q L   QER N+ EL    ISP SPRK L+ R V  K+A KL K               
Sbjct: 233 SQNL---QERGNALELPTCPISPSSPRKLLEHRNVQKKKAMKLQKVTSMGDECIDIRAKD 289

Query: 270 -------PIRRSFSMDSSADPKLYLAIQEAVQ-QKRQVTEASPIEGCS---SRSKRFFFN 318
                  PIRRSFSMDSS D + YLA+QEA++ Q  QV E + IEGCS   SR+KR FF+
Sbjct: 290 DQFFSVQPIRRSFSMDSSGDRRFYLAVQEALRNQNWQVNEVNSIEGCSGIGSRAKRSFFS 349

Query: 319 FGHGSRGSRSAVLPVYSEP 337
           FGHGSR SRS+V PV  +P
Sbjct: 350 FGHGSR-SRSSVQPVSLDP 367

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356574754|ref|XP_003555510.1| PREDICTED: RING-H2 finger protein ATL16-like [Glycine max]

 Score =  340 bits (873), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 218/376 (57%), Positives = 257/376 (68%), Gaps = 51/376 (13%)

Query: 1   MDLVSK-HMIHASQ------ALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGF 53
           MDLVS+ ++I+ASQ      AL PI SP +SIF     H+S TSFP+IAIAI+GI+AT F
Sbjct: 1   MDLVSRRYLIYASQHGPQPQALSPITSPGSSIFHPHQ-HSSSTSFPIIAIAIIGIMATAF 59

Query: 54  LLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIF 113
           LLVSYYIFVIKCCLNWHRID+LRRFS SR R +      +SP  +TRGLDEA+IR IP+ 
Sbjct: 60  LLVSYYIFVIKCCLNWHRIDVLRRFSPSRRREDPPP--TYSPGTDTRGLDEALIRLIPVI 117

Query: 114 QFKKKA-SRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC 172
           Q+K +  +RD  ER FCECAVCLNEFQE+EKLRIIPNC HVFHIDCIDVWLQSNANCPLC
Sbjct: 118 QYKAQGDNRDLEERRFCECAVCLNEFQEDEKLRIIPNCCHVFHIDCIDVWLQSNANCPLC 177

Query: 173 RTSISSTTTTPTTFLPFDRII---APSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQ 229
           RT+IS T+         D+++     SS P D +P  EN+I  DEDFVVIELG+ H   Q
Sbjct: 178 RTTISLTSR-----FHIDQLLNLRPSSSYPHDQTPPRENLIGGDEDFVVIELGSDHDRSQ 232

Query: 230 TLLATQERLNSGELSGHSISP-SPRK-LDQRFVH-KRARKLHK----------------- 269
            L   QER N+ EL    ISP SPRK L+ R V  K+  KL K                 
Sbjct: 233 NL---QERGNALELPTCPISPSSPRKLLEHRNVQKKKTMKLQKVTSMGDECIDIRAKDDQ 289

Query: 270 ----PIRRSFSMDSSADPKLYLAIQEAVQ-QKRQVTEASPIEGCS---SRSKRFFFNFGH 321
               PIRRSFSMDSS D + YLA+QEA++ Q RQV E + IEGCS   SR+KR FF+FGH
Sbjct: 290 FSVQPIRRSFSMDSSGDRQFYLAVQEALRHQNRQVNEVNSIEGCSGSGSRAKRSFFSFGH 349

Query: 322 GSRGSRSAVLPVYSEP 337
           GSR SRS+V PV  +P
Sbjct: 350 GSR-SRSSVQPVSLDP 364

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225437852|ref|XP_002263905.1| PREDICTED: RING-H2 finger protein ATL1-like [Vitis vinifera]

 Score =  335 bits (860), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 178/349 (51%), Positives = 237/349 (67%), Gaps = 37/349 (10%)

Query: 10  HASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNW 69
           H S+AL  I++  N I+   SS  SDT+FP++AIA++ I+AT FLLVSYYIFVIKCCL+W
Sbjct: 11  HGSEALVYIKTHENPIYQP-SSPASDTAFPILAIAVLSIMATAFLLVSYYIFVIKCCLSW 69

Query: 70  HRIDILRRFSLSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFC 129
           H I++LRRFS S++R+  + L+ +SP    RGLDE++I  IP F F++  S    E SF 
Sbjct: 70  HHIELLRRFSTSQSRQQEDPLMDYSPTFLNRGLDESLIHQIPTFLFRRGQSE---EGSFH 126

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPF 189
            C VCLNEFQE++ +R++PNC H FH+DCID+WLQSNANCPLCR+SIS TT         
Sbjct: 127 GCVVCLNEFQEHDMIRVLPNCSHAFHLDCIDIWLQSNANCPLCRSSISGTTRYRN----- 181

Query: 190 DRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLA---TQERLNSGELSGH 246
           D IIAPSS+PQDP P++E ++  D+DFVVIELG     D+ ++     QER +S EL   
Sbjct: 182 DPIIAPSSSPQDPRPFSEALMGGDDDFVVIELGG--GDDRGVILPPRQQERADSRELLVQ 239

Query: 247 SISPSPRKLDQRFVHKRARKLH---------------------KPIRRSFSMDSSADPKL 285
           S  PSP KL Q+  +K++RK H                     +PIRRSFSMDS+ADP+L
Sbjct: 240 SRGPSPTKLQQKLENKKSRKFHYVSSMGDECIDVREKDDQFLIQPIRRSFSMDSAADPQL 299

Query: 286 YLAIQEAVQQK-RQVTEASPIEGCSSRSKRFFFNFGHGSRGSRSAVLPV 333
           Y+ +QE ++ K R ++E S  + C SR +R FF+FGHG RGSR+AVLP+
Sbjct: 300 YMTVQEIIRNKNRPLSEVSTSQECDSRVRRSFFSFGHG-RGSRNAVLPI 347

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297795079|ref|XP_002865424.1| hypothetical protein ARALYDRAFT_494656 [Arabidopsis lyrata subsp. lyrata] gi|297311259|gb|EFH41683.1| hypothetical protein ARALYDRAFT_494656 [Arabidopsis lyrata subsp. lyrata]

 Score =  304 bits (778), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 172/342 (50%), Positives = 225/342 (65%), Gaps = 52/342 (15%)

Query: 1   MDLVSKHMIHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYI 60
           MDL ++H  +  + L     P   IF   SS  + TSFP++A+A++GILAT FLLVSYY+
Sbjct: 1   MDLSNRH--NTLRDLSFPPPPPPPIFHRASS--TGTSFPILAVAVIGILATAFLLVSYYV 56

Query: 61  FVIKCCLNWHRIDILRRFSLSRNRRNLEH-LIAHSPALETRGLDEAVIRAIPIFQFKKKA 119
           FVIKCCLNWHRIDIL RFSLSR RRN +  L+ +SP L  RGLDE+VIRAIPIF+FKK+ 
Sbjct: 57  FVIKCCLNWHRIDILHRFSLSRRRRNDQDPLMVYSPELRNRGLDESVIRAIPIFKFKKRN 116

Query: 120 SRDFG--------ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPL 171
            ++ G        E+S  EC+VCL+EFQ+ EKLRIIPNC H+FHIDCIDVWLQ+NANCPL
Sbjct: 117 DQNDGVFTGEGEEEKSSQECSVCLSEFQDEEKLRIIPNCCHLFHIDCIDVWLQNNANCPL 176

Query: 172 CRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTEN-VINSDEDFVVIELGNHHSTDQ- 229
           CR  +S  T+      P DR+ APSS+P++P   +   V+  + ++VVIELGN   +D+ 
Sbjct: 177 CRARVSCDTS-----FPPDRVSAPSSSPENPIVGSGTVVVRGENEYVVIELGNSTGSDRD 231

Query: 230 -----TLLATQERLNSGEL----SGHSISPSPRKLDQRFVHKRARKLHK----------- 269
                 LL  QER  SG L    + +SI PSP+K D+  + +++RKLHK           
Sbjct: 232 SPRSGKLLMEQERSKSGHLLTENTQNSICPSPKKFDRGGLPRKSRKLHKMTSMGDECIDI 291

Query: 270 ------------PIRRSFSMDSSADPKLYLAIQEAVQQKRQV 299
                       PIRRS SMDSSAD +LY+A+QEA+++ R+V
Sbjct: 292 RRGIDEQFGSIQPIRRSISMDSSADRQLYMAVQEAIRKNREV 333

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848660|ref|XP_002892211.1| hypothetical protein ARALYDRAFT_887598 [Arabidopsis lyrata subsp. lyrata] gi|297338053|gb|EFH68470.1| hypothetical protein ARALYDRAFT_887598 [Arabidopsis lyrata subsp. lyrata]

 Score =  299 bits (766), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 172/355 (48%), Positives = 218/355 (61%), Gaps = 60/355 (16%)

Query: 34  SDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEHLIAH 93
           S T+FP+IAIA++GILAT FLLVSYYIFVIKCCLNWH+IDI RR    R   +   L+ +
Sbjct: 37  SGTNFPIIAIAVIGILATAFLLVSYYIFVIKCCLNWHQIDIFRR---RRRSSDQNPLMIY 93

Query: 94  SPALETRGLDEAVIRAIPIFQFKKK---ASRDFGERSFCECAVCLNEFQENEKLRIIPNC 150
           SP    RGLDE+ IRAIP+F+FKK+   A  D   ++  EC+VCLNEFQE+EKLRIIPNC
Sbjct: 94  SPHEVNRGLDESAIRAIPVFKFKKRDVAAGEDDQNKNSQECSVCLNEFQEDEKLRIIPNC 153

Query: 151 GHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTPQDPSPYTEN-- 208
            HVFHIDCID+WLQ NANCPLCRTS+S   +        D I +P S+P++ SP++ N  
Sbjct: 154 CHVFHIDCIDIWLQGNANCPLCRTSVSCDAS-----FSLDLISSPISSPEN-SPHSRNRN 207

Query: 209 -----VINSDEDFVVIELGNHHST------DQTLLATQERLNSGEL----SGHSISPSPR 253
                V+ SD+DFVVIELG  +        ++  L  QER+ S ++    S  S+SP PR
Sbjct: 208 LEPGLVLGSDDDFVVIELGASNGNNRGSVRNRDFLTEQERVASNQVSTGNSSKSMSPLPR 267

Query: 254 KLDQRFVHKRARKLHK----------------------PIRRSFSMDSSADPKLYLAIQE 291
           K D R +HK+  K HK                      PIRRS SMDSS D +LYLA+QE
Sbjct: 268 KFDNRGMHKKESKFHKMTSMGDECIDTRGKDGHFGEIHPIRRSISMDSSVDRQLYLAVQE 327

Query: 292 AVQQK-RQVTEASPIEGCSSRS--------KRFFFNFGHGSRGSRSAVLPVYSEP 337
            + ++ RQ+  A   E  +S S        KR FF+FG       S++LPVY EP
Sbjct: 328 EISRRNRQIPVAGDSEDSTSSSGGGNNRVMKRCFFSFGSSRTSKNSSILPVYLEP 382

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239865|ref|NP_199155.1| RING-H2 finger protein ATL16 [Arabidopsis thaliana] gi|68565310|sp|Q9LSW9.1|ATL16_ARATH RecName: Full=RING-H2 finger protein ATL16 gi|8843895|dbj|BAA97421.1| unnamed protein product [Arabidopsis thaliana] gi|30725342|gb|AAP37693.1| At5g43420 [Arabidopsis thaliana] gi|110736470|dbj|BAF00203.1| hypothetical protein [Arabidopsis thaliana] gi|332007576|gb|AED94959.1| RING-H2 finger protein ATL16 [Arabidopsis thaliana]

 Score =  298 bits (764), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 162/313 (51%), Positives = 214/313 (68%), Gaps = 54/313 (17%)

Query: 31  SHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDILRRFSLSRNRRNLEH- 89
           + ++ TSFP++A+A++GILAT FLLVSYY+FVIKCCLNWHRIDIL RFSLSR RRN +  
Sbjct: 27  ASSTGTSFPILAVAVIGILATAFLLVSYYVFVIKCCLNWHRIDILGRFSLSRRRRNDQDP 86

Query: 90  LIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFG----------ERSFCECAVCLNEFQ 139
           L+ +SP L +RGLDE+VIRAIPIF+FKK+  ++ G          E+   EC+VCL+EFQ
Sbjct: 87  LMVYSPELRSRGLDESVIRAIPIFKFKKRYDQNDGVFTGEGEEEEEKRSQECSVCLSEFQ 146

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTP 199
           + EKLRIIPNC H+FHIDCIDVWLQ+NANCPLCRT +S  T+ P      DR+ APS++P
Sbjct: 147 DEEKLRIIPNCSHLFHIDCIDVWLQNNANCPLCRTRVSCDTSFPP-----DRVSAPSTSP 201

Query: 200 QDPSPYTENVINSDEDFVVIELGNHHSTDQT------LLATQERLNSGEL----SGHSIS 249
           ++       ++  + ++VVIELG+   +D+       LL  QER NSG L    + +SIS
Sbjct: 202 ENLV-----MLRGENEYVVIELGSSIGSDRDSPRHGRLLTGQERSNSGYLLNENTQNSIS 256

Query: 250 PSPRKLDQRFVHKRARKLHK-----------------------PIRRSFSMDSSADPKLY 286
           PSP+KLD+  + ++ RKLHK                       PIRRS SMDSSAD +LY
Sbjct: 257 PSPKKLDRGGLPRKFRKLHKMTSMGDECIDIRRGKDEQFGSIQPIRRSISMDSSADRQLY 316

Query: 287 LAIQEAVQQKRQV 299
           LA+QEA+++ R+V
Sbjct: 317 LAVQEAIRKNREV 329

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	337
TAIR|locus:2176436	375	AT5G43420 [Arabidopsis thalian	0.756	0.68	0.475	2.5e-75
TAIR|locus:2018334	381	AT1G04360 [Arabidopsis thalian	0.768	0.679	0.477	8.6e-73
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.439	0.408	0.381	4e-26
TAIR|locus:2096444	356	AT3G03550 [Arabidopsis thalian	0.578	0.547	0.310	1.4e-23
UNIPROTKB|Q7XLY8	383	LOC_Os04g50100 "E3 ubiquitin-p	0.866	0.762	0.272	3.4e-22
TAIR|locus:4515103413	310	ATL4H [Arabidopsis thaliana (t	0.409	0.445	0.397	1.1e-21
TAIR|locus:2199902	369	AT1G23980 [Arabidopsis thalian	0.477	0.436	0.346	6.1e-20
TAIR|locus:2207066	413	AT1G72220 [Arabidopsis thalian	0.454	0.370	0.359	9.3e-20
TAIR|locus:2081907	334	ATL4 "TOXICOS EN LEVADURA 4" [	0.439	0.443	0.35	1.9e-19
TAIR|locus:2097890	349	AT3G48030 "AT3G48030" [Arabido	0.477	0.461	0.341	2.2e-19

TAIR|locus:2176436 AT5G43420 [Arabidopsis thaliana (taxid:3702)]

 Score = 609 (219.4 bits), Expect = 2.5e-75, Sum P(2) = 2.5e-75
 Identities = 138/290 (47%), Positives = 183/290 (63%)

Query:     1 MDLVSKHMIHASQALPPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYI 60
             MDL ++       + PP   P   IF   SS  + TSFP++A+A++GILAT FLLVSYY+
Sbjct:     1 MDLSNRRNPLRDLSFPP--PPPPPIFHRASS--TGTSFPILAVAVIGILATAFLLVSYYV 56

Query:    61 FVIKCCLNWHRIDIXXXXXXXXXXXXXEH-LIAHSPALETRGLDEAVIRAIPIFQFKKKA 119
             FVIKCCLNWHRIDI             +  L+ +SP L +RGLDE+VIRAIPIF+FKK+ 
Sbjct:    57 FVIKCCLNWHRIDILGRFSLSRRRRNDQDPLMVYSPELRSRGLDESVIRAIPIFKFKKRY 116

Query:   120 SRDFG----------ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANC 169
              ++ G          E+   EC+VCL+EFQ+ EKLRIIPNC H+FHIDCIDVWLQ+NANC
Sbjct:   117 DQNDGVFTGEGEEEEEKRSQECSVCLSEFQDEEKLRIIPNCSHLFHIDCIDVWLQNNANC 176

Query:   170 PLCRXXXXXXXXXXXXFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQ 229
             PLCR              P DR+ APS++P++       ++  + ++VVIELG+   +D+
Sbjct:   177 PLCRTRVSCDTS-----FPPDRVSAPSTSPENLV-----MLRGENEYVVIELGSSIGSDR 226

Query:   230 T------LLATQERLNSGEL----SGHSISPSPRKLDQRFVHKRARKLHK 269
                    LL  QER NSG L    + +SISPSP+KLD+  + ++ RKLHK
Sbjct:   227 DSPRHGRLLTGQERSNSGYLLNENTQNSISPSPKKLDRGGLPRKFRKLHK 276

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2018334 AT1G04360 [Arabidopsis thaliana (taxid:3702)]

 Score = 605 (218.0 bits), Expect = 8.6e-73, Sum P(2) = 8.6e-73
 Identities = 140/293 (47%), Positives = 181/293 (61%)

Query:     1 MDLVSKHMIHASQALPPIRSPSNSIFGS----RSSHNSDTSFPVIAIAIVGILATGFLLV 56
             MDL  +     +   PP   P ++ F S    R+S +S T+FP++AIA++GILAT FLLV
Sbjct:     1 MDLTDRRNPFNNLVFPPPPPPPSTTFTSPIFPRTS-SSGTNFPILAIAVIGILATAFLLV 59

Query:    57 SYYIFVIKCCLNWHRIDIXXXXXXXXXXXXXEHLIAHSPALETRGLDEAVIRAIPIFQFK 116
             SYYIFVIKCCLNWH+IDI               L+ +SP    RGLDE+ IRAIP+F+FK
Sbjct:    60 SYYIFVIKCCLNWHQIDIFRRRRRSSDQ---NPLMIYSPHEVNRGLDESAIRAIPVFKFK 116

Query:   117 KK---ASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
             K+   A  +   ++  EC+VCLNEFQE+EKLRIIPNC HVFHIDCID+WLQ NANCPLCR
Sbjct:   117 KRDVVAGEEDQSKNSQECSVCLNEFQEDEKLRIIPNCCHVFHIDCIDIWLQGNANCPLCR 176

Query:   174 XXXXXXXXXXXXFLPFDRIIAPSSTPQDPSPYTEN-------VINSDEDFVVIELG---- 222
                             D I APSS P++ SP++ N       V+  D+DFVVIELG    
Sbjct:   177 TSVSCEASFT-----LDLISAPSS-PRENSPHSRNRNLEPGLVLGGDDDFVVIELGASNG 230

Query:   223 NHHSTDQTL--LATQERLNSGELS-GHS---ISPSPRKLDQRFVHKRARKLHK 269
             N+  + + +  L  QER+ S E+S G+S   +SP P K   R ++K+ RK HK
Sbjct:   231 NNRESVRNIDFLTEQERVTSNEVSTGNSPKSVSPLPIKFGNRGMYKKERKFHK 283

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2151421 AT5G17600 [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 4.0e-26, P = 4.0e-26
 Identities = 61/160 (38%), Positives = 93/160 (58%)

Query:    16 PPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDIX 75
             PP   P  S F    S +S +SF  + IA++GIL +  +LVSYY  + K C   HR    
Sbjct:    35 PP---PPPSFFLDDDSSSSSSSFSPLLIALIGILTSALILVSYYTLISKYC---HRHHQT 88

Query:    76 XXXXXXXXXXXXEHLIAHSPALETRG--LDEAVIRAIPIFQFKKKASRDFGERSFCECAV 133
                         E   + +  + T G  L+E++I++I ++++K  +   F + S  +C+V
Sbjct:    89 SSSETLNLNHNGEGFFSSTQRISTNGDGLNESMIKSITVYKYK--SGDGFVDGS--DCSV 144

Query:   134 CLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
             CL+EF+ENE LR++P C H FH+ CID WL+S++NCPLCR
Sbjct:   145 CLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCR 184

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2096444 AT3G03550 [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 71/229 (31%), Positives = 114/229 (49%)

Query:    21 PSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDIXXXXXX 80
             P  S +      +S + F  + IA++GILA+ F+LVSYY  + K C +  R +       
Sbjct:    39 PPPSFYLDDEDDSSSSDFSPLLIALIGILASAFILVSYYTLISKYC-HRRRHNSSSTSAA 97

Query:    81 XXXXXXXEHLI----------AHSPALETRG-----LDEAVIRAIPIFQFKKKASRDFGE 125
                    ++            A +P     G     LDE++I++I +++++K     F E
Sbjct:    98 AINRISSDYTWQGTNNNNNNGATNPNQTIGGGGGDGLDESLIKSITVYKYRKMDG--FVE 155

Query:   126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRXXXXXXXXXXXX 185
              S  +C+VCL+EFQENE LR++P C H FH+ CID WL+S++NCPLCR            
Sbjct:   156 SS--DCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLKSHSNCPLCRAFIVTSSAVEIV 213

Query:   186 FLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVI---ELGNHHSTDQTL 231
              L   +I+  +           N I++ +D VV+   +L N  S ++T+
Sbjct:   214 DLTNQQIVTEN-----------NSISTGDDSVVVVNLDLENSRSRNETV 251

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0080167 "response to karrikin" evidence=IEP

UNIPROTKB|Q7XLY8 LOC_Os04g50100 "E3 ubiquitin-protein ligase Os04g0590900" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 90/330 (27%), Positives = 148/330 (44%)

Query:    16 PPIRSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCC--LNWHRID 73
             PP   P   + G+ +  +S   F  + IAI+G+LA+ FLLVSYY F+ K C  ++  R  
Sbjct:    35 PP--PPPFDVAGTSADDSSGPVFSPLVIAIIGVLASAFLLVSYYTFISKYCGTVSSLRGR 92

Query:    74 IXXXXXXXXXX-----XXXEHLIAHSPALET------RGLDEAVIRAIPIFQFKKKASRD 122
             +                   H    S + E+       GLDE +I  I + +++    R 
Sbjct:    93 VFGSSSGGAAYGGGAGSGGRHGHGQSRSHESWNVSPPSGLDETLINKITVCKYR----RG 148

Query:   123 FGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRXXXXXXXXX 182
              G     +C+VCL EF + E LR++P C H FH  CID WL+S++NCPLCR         
Sbjct:   149 DGFVHTTDCSVCLGEFSDGESLRLLPRCSHAFHQQCIDTWLKSHSNCPLCRAN------- 201

Query:   183 XXXFLPFDRIIAPSSTPQDPSPYTENVINSDEDFVVIELGNHHSTDQTLLATQERLNSGE 242
                 + F  +   S  P+  +P      N+ E  VV++ G  +  ++   A   R ++ +
Sbjct:   202 ----ITFVTVGLASPEPEGCAPGETGGDNTHEVVVVMD-GLENLCEEQQEAVS-RASTAD 255

Query:   243 LSGHSISPSPRKLDQRFVHKRARKLHKPIRR-SFSMDSSADPKLYLA--IQEAVQQKRQV 299
                H        +++       R+   P +R + S D   D ++ +A  +QE+++ +   
Sbjct:   256 -DDHDAKDVAEGMEEANGAAEIREEGSPPKRGASSFDLHRDNRMCIADVLQESMEDELTA 314

Query:   300 T-EASPIEGCSSRSKRFFFNFGHGSRGSRS 328
               E+  + G +  S+R       G RG RS
Sbjct:   315 ARESGLLAGGAGTSRRCHGENSKG-RGGRS 343

GO:0004842 "ubiquitin-protein ligase activity" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:4515103413 ATL4H [Arabidopsis thaliana (taxid:3702)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 58/146 (39%), Positives = 80/146 (54%)

Query:    34 SDTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNWHRIDIXXXXXXXXXXXXX---EHL 90
             S+ +   + IAI GI AT FLL +YY  V K C N    +                 E  
Sbjct:    54 SNPNLSPLVIAIFGIFATAFLLAAYYTLVSKYCANDTTNEAASESGRSDIILDVNSPERG 113

Query:    91 IAHSP-ALE--TRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRII 147
                 P ALE  T GLD+ +I+ I  F+ KK  +  F + +  +C++CL EF E+E LR++
Sbjct:   114 DQDDPFALESSTAGLDDTLIKKIGFFKLKKHQN-GF-KINGTDCSICLGEFNEDESLRLL 171

Query:   148 PNCGHVFHIDCIDVWLQSNANCPLCR 173
             P C H FH+ CID WL+S++NCPLCR
Sbjct:   172 PKCNHTFHVVCIDRWLKSHSNCPLCR 197

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2199902 AT1G23980 [Arabidopsis thaliana (taxid:3702)]

 Score = 238 (88.8 bits), Expect = 6.1e-20, P = 6.1e-20
 Identities = 61/176 (34%), Positives = 89/176 (50%)

Query:     7 HMIHASQALPPI---RSPSNSIFGSRSSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVI 63
             + I  S A  PI      ++S   S S  N+  S P+I   IV +L+  F + S    ++
Sbjct:    17 NQISPSSAPSPITLNHQLTDSSSSSSSGGNNRIS-PIILFIIV-LLSVIFFICSILHLLV 74

Query:    64 KCCLNWHRIDIXXXXXXX------XXXXXXEHLIAHSPALETRGLDEAVIRAIPIFQFKK 117
             +  L   R ++                   +  +     L   GLD+A+I A+P+F +K+
Sbjct:    75 RYYLKKKRSNLSSSPNESNQNPEFSDSDTYQRQLQQLFHLHDSGLDQALIDALPVFLYKE 134

Query:   118 KASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
                   G +   +CAVCL EF E++KLR++PNC H FHIDCID WL SN+ CPLCR
Sbjct:   135 IK----GTKEPFDCAVCLCEFSEDDKLRLLPNCSHAFHIDCIDTWLLSNSTCPLCR 186

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2207066 AT1G72220 [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 9.3e-20, P = 9.3e-20
 Identities = 59/164 (35%), Positives = 88/164 (53%)

Query:    17 PIRSPS-NSIF-GSRSSHNSDTSFPVIAI--AIVGILATGFLLVSYYIF--VIKCCLNWH 70
             P  SPS ++++  S+ S +S  +  +I I  A++ IL TGF LV+ +    V +     +
Sbjct:    60 PCPSPSISAVYLPSQDSSSSLDAISIITITGAVLAILLTGFFLVAKFFSDSVNRVNQGTY 119

Query:    71 RIDIXXXXXXXXXXXXXEHLIAHSPAL-ETRGLDEAVIRAIPIFQFKKKASRDFGERSFC 129
             + D                 + H   L  T GL +++I +I I  +K+       ER+  
Sbjct:   120 QSDNEDNDTVMEEEFQDREQVDHPIWLIRTTGLQQSIINSITICNYKR--GDGLIERT-- 175

Query:   130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
             +C VCLNEF+E+E LR++P C H FHI CID WL S+ NCPLCR
Sbjct:   176 DCPVCLNEFEEDESLRLLPKCNHAFHISCIDTWLSSHTNCPLCR 219

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2081907 ATL4 "TOXICOS EN LEVADURA 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 56/160 (35%), Positives = 84/160 (52%)

Query:    20 SPSNSIFGSRSSHNS--DTSFPVIAIAIVGILATGFLLVSYYIFVIKCCLNW--HR--ID 73
             +PS+   G+  SH+S  D+  P + + I+ +L T  LL+S  I  +  CLN   HR  + 
Sbjct:     6 NPSHG-GGNYDSHSSSLDSLKPSVLVIILILLMT--LLISVSICFLLRCLNRCSHRSVLP 62

Query:    74 IXXXXXXXXXXXXXEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAV 133
             +                  H  + ET     +V+ ++PIF+F     R     S  +CAV
Sbjct:    63 LSSSSSVATVTSDSRRFSGHRVSPETER--SSVLDSLPIFKFSSVTRRSSSMNSG-DCAV 119

Query:   134 CLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
             CL++F+  ++LR++P C H FH DCID+WL SN  CPLCR
Sbjct:   120 CLSKFEPEDQLRLLPLCCHAFHADCIDIWLVSNQTCPLCR 159

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2097890 AT3G48030 "AT3G48030" [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 2.2e-19, Sum P(2) = 2.2e-19
 Identities = 57/167 (34%), Positives = 83/167 (49%)

Query:     9 IHASQALPPIRSPSNSI-FGSRSSHNSDTSFPVIAIAIVGI-LATGFLLVSYYIFVIKCC 66
             IH ++AL P  S + ++   ++   +S +   V+ + I G+ L   FL V Y IF     
Sbjct:    87 IHETEALSPKSSSAATLTLMNQKDPSSSSIVSVLCLVISGLALIIVFLGVLYLIFKF-LR 145

Query:    67 LNWHRIDIXXXXXXXXXXXXXEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGER 126
              +     I                + H   L   GLD+  I A+P+F +         E+
Sbjct:   146 KSSTLFPIPHFNYNPDLFSFSSPQLQHLFFLHDSGLDQTAIDALPVFLYGNVTISL--EQ 203

Query:   127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
              F +CAVCLNEF + +KLR++P C H FH+ CID WL SN+ CPLCR
Sbjct:   204 PF-DCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCR 249

GO:0001666 "response to hypoxia" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LSW9	ATL16_ARATH	No assigned EC number	0.5175	0.7685	0.6906	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_X000673 hypothetical protein (340 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	337
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-12
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-10
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-08
smart00184	40	smart00184, RING, Ring finger	3e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	8e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-05
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	1e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	1e-04
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	1e-04
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-04
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	4e-04
pfam05883	135	pfam05883, Baculo_RING, Baculovirus U-box/Ring-lik	4e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	7e-04

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 70.5 bits (173), Expect = 5e-16
 Identities = 24/46 (52%), Positives = 35/46 (76%), Gaps = 1/46 (2%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTS 175
           EC +CL+EF+  E++ ++P CGHVFH +C+D WL+S+  CPLCR  
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 61.3 bits (149), Expect = 1e-12
 Identities = 25/48 (52%), Positives = 30/48 (62%), Gaps = 4/48 (8%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSI 176
           EC +CL EF+E     ++  CGHVF   CID WL+S    CPLCRT I
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 60.2 bits (146), Expect = 1e-10
 Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 4/57 (7%)

Query: 130 ECAVCL----NEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTT 182
           ECA+C+    ++  +N    I+ NC HVF I+CID+W +    CP+CRT   S   +
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKS 232

Length = 238

>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 55.5 bits (134), Expect = 3e-10
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 9/52 (17%)

Query: 131 CAVCLNEFQE---------NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           CA+C N F           ++   +   CGH FH+ CI  WL++   CPLCR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control. Length = 73

>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 59.2 bits (143), Expect = 7e-10
 Identities = 24/49 (48%), Positives = 37/49 (75%), Gaps = 2/49 (4%)

Query: 129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSI 176
            ECA+C++ F +N++LR++P C H FH+ C+D WL   +N CP+CRT+I
Sbjct: 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRT 174
           EC +CL+         ++  CGHVF  +CI  +L+  + CP+CRT
Sbjct: 4   ECPICLDLL---RDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 48.7 bits (116), Expect = 3e-08
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLC 172
           C +CL E+ ++    I+P CGH F   CI  WL+S N  CP+C
Sbjct: 1   CPICLEEYLKD--PVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 44.8 bits (106), Expect = 8e-07
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLC 172
           C +CL E ++   + I+P CGH+F   CI  WL+S    CPLC
Sbjct: 1   CPICLEEPKDP--VTILP-CGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 45.7 bits (108), Expect = 2e-05
 Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 13/91 (14%)

Query: 131 CAVCLNEFQE----------NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT 180
           C +C++E             +   + +P CGH+ H+ C+  WL+    CP+CR  +    
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQ 348

Query: 181 TTPTTFLPFDR--IIAPSSTPQDPSPYTENV 209
           ++PT   P  R   IA      D +P T  V
Sbjct: 349 SSPTPASPNVRNTQIATQVPNPDNTPTTTAV 379

Length = 491

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 15/67 (22%)

Query: 130 ECAVCLNEFQENEKLRII----PNCGHVFHIDCIDVWLQSN-----------ANCPLCRT 174
           EC +C     +  ++  I    P CG  FHI C+  WL++              CP C+ 
Sbjct: 4   ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63

Query: 175 SISSTTT 181
            IS   +
Sbjct: 64  KISVKFS 70

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 43.9 bits (103), Expect = 1e-04
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 11/71 (15%)

Query: 115  FKKKASRDFGERSFCECAVCLNEFQENEKLRIIPN-----CGHVFHIDCIDVWLQS--NA 167
            +KK     F      ECA+C +     +  R +P+     C + FH  C+  W  S   +
Sbjct: 1458 WKKNIDEKF--SGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARS 1513

Query: 168  NCPLCRTSISS 178
            NCPLCR+ I+ 
Sbjct: 1514 NCPLCRSEITF 1524

Length = 1525

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 6/51 (11%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGH-VFHIDCIDVWLQSNANCPLCRTSISST 179
            C +CL    E  +  +   CGH     +C    L+S   CP+CR  I S 
Sbjct: 4   LCVICL----ERPRNVVFLPCGHLCLCEECAK-RLRSKKKCPICRQPIESV 49

Length = 49

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 12/55 (21%)

Query: 131 CAVCLNEFQE------------NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           CA+C N                +E   +   C H FH  CI  WL +   CPL R
Sbjct: 23  CAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 41.2 bits (96), Expect = 4e-04
 Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 11/64 (17%)

Query: 130 ECAVCL-----NEFQENEKLRIIPNCGHVFHIDCIDVWLQS------NANCPLCRTSISS 178
           EC +C         + +    ++ +C H+F I CI++W ++      + NCP+CRT   +
Sbjct: 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231

Query: 179 TTTT 182
            T +
Sbjct: 232 ITMS 235

Length = 242

>gnl|CDD|218794 pfam05883, Baculo_RING, Baculovirus U-box/Ring-like domain

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 125 ERSFCECAVCLNEFQENEKLRIIPNCG-----HVFHIDCIDVWLQSNANCPLCR 173
            R   ECA+CL+   +N+ +  + + G      +FH +C   W +     P  R
Sbjct: 23  PRCTVECAICLDRINDNDGVVAVTDGGTLNLEKMFHAECDKRWKRERKRDPFNR 76

This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison. Length = 135

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 37.8 bits (88), Expect = 7e-04
 Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 3/29 (10%)

Query: 150 CGHVFHIDCIDVWLQ---SNANCPLCRTS 175
           C H FH+ CI  WL    S   CP+CR +
Sbjct: 52  CKHNFHMHCILKWLATETSKGLCPMCRQT 80

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	337
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.77
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.46
PHA02929	238	N1R/p28-like protein; Provisional	99.31
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.26
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.22
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.17
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.97
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.87
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.84
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.84
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.8
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.78
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.76
PHA02926	242	zinc finger-like protein; Provisional	98.73
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.64
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.63
PF14634	44	zf-RING_5: zinc-RING finger domain	98.58
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.54
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.54
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.48
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.46
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.42
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.35
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.31
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.23
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.18
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.12
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.11
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.11
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.09
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.93
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.89
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.88
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.84
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.83
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.8
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.8
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.79
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.72
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.49
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.47
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.3
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.22
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.11
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.11
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.81
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.58
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.57
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.56
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.49
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.37
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.32
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.23
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.16
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.0
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.89
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.74
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.64
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.54
KOG2660	331	consensus Locus-specific chromosome binding protei	95.54
PHA03096	284	p28-like protein; Provisional	95.48
PHA02862	156	5L protein; Provisional	95.33
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.22
COG5152	259	Uncharacterized conserved protein, contains RING a	95.22
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.06
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.97
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.86
KOG4739	233	consensus Uncharacterized protein involved in syna	94.68
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.56
PHA02825	162	LAP/PHD finger-like protein; Provisional	94.54
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.01
PF04641	260	Rtf2: Rtf2 RING-finger	93.93
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.72
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.68
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.64
KOG1940	276	consensus Zn-finger protein [General function pred	93.04
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	92.92
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	92.9
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	92.53
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	92.52
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.46
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.1
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.61
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.4
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.3
COG5175	480	MOT2 Transcriptional repressor [Transcription]	89.94
KOG1001	674	consensus Helicase-like transcription factor HLTF/	89.76
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.54
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.35
KOG0298	1394	consensus DEAD box-containing helicase-like transc	87.96
PF01708	91	Gemini_mov: Geminivirus putative movement protein	86.52
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	86.51
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	86.2
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	84.33
KOG1609	323	consensus Protein involved in mRNA turnover and st	82.23
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	81.79
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	81.59
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	81.11

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.77  E-value=1.9e-18  Score=167.17  Aligned_cols=78  Identities=35%  Similarity=0.905  Sum_probs=66.1

Q ss_pred             cCCCCHHHHHhCCceeeccccccccCCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCC-CCcccccCC
Q 042750           99 TRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSIS  177 (337)
Q Consensus        99 ~~gl~~~~i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~-CPlCR~~l~  177 (337)
                      ...+.+..++++|..+|......+   . ...|+||||+|..|+++++|| |+|.||..||+.||..+.+ ||+||+++.
T Consensus       204 ~~r~~k~~l~~~p~~~f~~~~~~~---~-~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  204 RNRLIKRLLKKLPVRTFTKGDDED---A-TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             hhhhHHHHHhhCCcEEeccccccC---C-CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            345778899999999999986222   1 168999999999999999999 9999999999999988755 999999886


Q ss_pred             CCCC
Q 042750          178 STTT  181 (337)
Q Consensus       178 ~~~~  181 (337)
                      ....
T Consensus       279 ~~~~  282 (348)
T KOG4628|consen  279 TDSG  282 (348)
T ss_pred             CCCC
Confidence            6543

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.46  E-value=2.6e-14  Score=99.06  Aligned_cols=44  Identities=55%  Similarity=1.329  Sum_probs=40.3

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCccc
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR  173 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR  173 (337)
                      ++|+||+++|..++.+..++ |+|.||.+||.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999998 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.31  E-value=1.4e-12  Score=121.21  Aligned_cols=78  Identities=31%  Similarity=0.712  Sum_probs=60.7

Q ss_pred             cCCCCHHHHHhCCceeeccccccccCCCCCCcccccccccccCc----eeEecCCCCccccHHhHHHHHhcCCCCCcccc
Q 042750           99 TRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENE----KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRT  174 (337)
Q Consensus        99 ~~gl~~~~i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~  174 (337)
                      +.+..+..+..+|.+.......  .....+.+|+||++.+..++    .+.+++.|+|.||.+||.+|+..+.+||+||.
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~--~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~  224 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKL--YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT  224 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhh--hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence            4677899999999997665431  12234579999999987653    13455569999999999999999999999999


Q ss_pred             cCCC
Q 042750          175 SISS  178 (337)
Q Consensus       175 ~l~~  178 (337)
                      .+..
T Consensus       225 ~~~~  228 (238)
T PHA02929        225 PFIS  228 (238)
T ss_pred             EeeE
Confidence            8754

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=1.8e-11  Score=118.19  Aligned_cols=55  Identities=31%  Similarity=0.953  Sum_probs=45.5

Q ss_pred             CCCCcccccccc-cccC---------ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCC
Q 042750          126 RSFCECAVCLNE-FQEN---------EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTT  181 (337)
Q Consensus       126 ~~~~~C~ICl~~-~~~~---------~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~  181 (337)
                      .++..|.||+++ |..+         .+.+.+| |||++|.+|++.|++++++||+||.++..+..
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd~~  349 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQS  349 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence            456789999999 4443         2456788 99999999999999999999999999765544

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.22  E-value=9.1e-12  Score=95.83  Aligned_cols=45  Identities=42%  Similarity=1.060  Sum_probs=35.5

Q ss_pred             CCcccccccccccC----------ceeEecCCCCccccHHhHHHHHhcCCCCCccc
Q 042750          128 FCECAVCLNEFQEN----------EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR  173 (337)
Q Consensus       128 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR  173 (337)
                      ++.|+||++.|.+.          ..+...+ |||.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            35699999999322          2344444 999999999999999999999997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.17  E-value=1.5e-11  Score=115.97  Aligned_cols=50  Identities=46%  Similarity=1.215  Sum_probs=45.4

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      .-+|+|||++|-.+++++++| |+|.||..|+++|+.. ...||+||..+.+
T Consensus       323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            478999999999999999999 9999999999999985 5669999998853

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.97  E-value=8.3e-10  Score=99.30  Aligned_cols=53  Identities=28%  Similarity=0.823  Sum_probs=42.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc----------------CCCCCcccccCCCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----------------NANCPLCRTSISSTTTT  182 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----------------~~~CPlCR~~l~~~~~~  182 (337)
                      .++.+|+||++.+.+   ..+++ |||.||..||..|+..                ...||+||..+......
T Consensus        16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv   84 (193)
T PLN03208         16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV   84 (193)
T ss_pred             CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence            456899999999865   34566 9999999999999852                24699999999775543

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.87  E-value=2e-09  Score=72.89  Aligned_cols=44  Identities=59%  Similarity=1.367  Sum_probs=36.3

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccC
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSI  176 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l  176 (337)
                      +|+||++.+  .+.+...+ |+|.||..|++.|+.. +..||+|+..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  33455555 9999999999999987 77799998764

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.84  E-value=2.5e-09  Score=76.04  Aligned_cols=46  Identities=33%  Similarity=0.950  Sum_probs=39.0

Q ss_pred             CCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      +..|.||++....   +..+| |||. |+..|+..|+.....||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            3679999998654   77788 9999 999999999999999999999874

...

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.84  E-value=2.9e-09  Score=97.58  Aligned_cols=58  Identities=31%  Similarity=0.812  Sum_probs=45.4

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC---CCCCcccccCCCCCCCCCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN---ANCPLCRTSISSTTTTPTTF  186 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~---~~CPlCR~~l~~~~~~~~~~  186 (337)
                      .....+|.|||+.-++   .+++. |||.||..||.+||+.+   +.||+||..|......|.+.
T Consensus        44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG  104 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG  104 (230)
T ss_pred             CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence            4567899999998544   34554 99999999999999864   44899999998877655433

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=98.80  E-value=2.8e-09  Score=83.90  Aligned_cols=51  Identities=29%  Similarity=0.723  Sum_probs=39.0

Q ss_pred             CCcccccccccccC--------c-eeEecCCCCccccHHhHHHHHhc---CCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQEN--------E-KLRIIPNCGHVFHIDCIDVWLQS---NANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~--------~-~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CPlCR~~l~~  178 (337)
                      ++.|.||...|...        + -..++..|+|.||.+||.+|+.+   +..||+||+.+..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            57899999999732        1 12233469999999999999986   4679999998743

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.78  E-value=4.6e-09  Score=70.91  Aligned_cols=39  Identities=41%  Similarity=1.236  Sum_probs=32.6

Q ss_pred             ccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcc
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlC  172 (337)
                      |+||++.+.+  .+..++ |||.|+..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999876  345666 99999999999999998899998

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.76  E-value=4.3e-09  Score=99.17  Aligned_cols=51  Identities=33%  Similarity=0.866  Sum_probs=42.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      .....|.+||+....   ...+| |||+||..||..|......||+||....+..
T Consensus       237 ~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            344789999999766   44567 9999999999999999999999999886544

>PHA02926 zinc finger-like protein; Provisional

Probab=98.73  E-value=6.4e-09  Score=94.98  Aligned_cols=54  Identities=30%  Similarity=0.850  Sum_probs=41.1

Q ss_pred             CCCCCcccccccccccC-----ceeEecCCCCccccHHhHHHHHhcC------CCCCcccccCCC
Q 042750          125 ERSFCECAVCLNEFQEN-----EKLRIIPNCGHVFHIDCIDVWLQSN------ANCPLCRTSISS  178 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~-----~~~~~lp~C~H~FH~~Ci~~Wl~~~------~~CPlCR~~l~~  178 (337)
                      ...+.+|+||||...++     ....+|+.|+|.||..||..|...+      .+||+||.....
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            34457899999986432     2344677799999999999999753      359999987753

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=1.6e-08  Score=89.28  Aligned_cols=53  Identities=32%  Similarity=0.794  Sum_probs=43.4

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      .....-|+|||+.+.+..  .+-.+|||+||..||+..+.....||+|++.|...
T Consensus       128 ~~~~~~CPiCl~~~sek~--~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKV--PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             cccccCCCceecchhhcc--ccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            344478999999987753  34346999999999999999999999999977543

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.63  E-value=1e-08  Score=106.36  Aligned_cols=51  Identities=35%  Similarity=0.944  Sum_probs=44.2

Q ss_pred             CCCcccccccccccCce--eEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQENEK--LRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~--~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .+..|+||+|++..+..  ...+| |+|+||..|+..|+++.++||.||..+..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            35789999999988754  67788 99999999999999999999999994443

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.58  E-value=4.2e-08  Score=68.01  Aligned_cols=44  Identities=30%  Similarity=0.971  Sum_probs=37.7

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccc
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRT  174 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~  174 (337)
                      .|.||++.|.......+++ |||+|+..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999995556677776 9999999999999866778999985

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.54  E-value=4.4e-08  Score=66.42  Aligned_cols=39  Identities=44%  Similarity=1.314  Sum_probs=32.9

Q ss_pred             ccccccccccCceeEecCCCCccccHHhHHHHHh--cCCCCCcc
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ--SNANCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~--~~~~CPlC  172 (337)
                      |+||++.+...  ..+++ |||.|+..||.+|+.  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998664  34666 999999999999998  45669998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>smart00184 RING Ring finger

Probab=98.54  E-value=6.7e-08  Score=62.98  Aligned_cols=38  Identities=45%  Similarity=1.285  Sum_probs=32.1

Q ss_pred             ccccccccccCceeEecCCCCccccHHhHHHHHh-cCCCCCcc
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlC  172 (337)
                      |+||++..   .....++ |+|.||..|++.|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999983   3466777 999999999999998 56779987

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>smart00504 Ubox Modified RING finger domain

Probab=98.48  E-value=1.6e-07  Score=69.20  Aligned_cols=46  Identities=22%  Similarity=0.567  Sum_probs=39.8

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..|+||++.+.+.   .+++ |||+|+..||.+|+..+.+||+|+..+..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            4799999998774   4566 99999999999999998999999988743

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=98.46  E-value=1.2e-07  Score=65.21  Aligned_cols=38  Identities=34%  Similarity=0.990  Sum_probs=28.7

Q ss_pred             ccccccccccCceeEecCCCCccccHHhHHHHHhcC----CCCCcc
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN----ANCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CPlC  172 (337)
                      |+||++.|.+   ...++ |||.|+..||..|.+..    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999977   45666 99999999999998763    359988

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=98.42  E-value=1.6e-07  Score=72.62  Aligned_cols=31  Identities=39%  Similarity=0.834  Sum_probs=28.1

Q ss_pred             CCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          149 NCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       149 ~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      .|+|.||.+||.+||..+..||+||++....
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             ecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            5999999999999999999999999987543

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.35  E-value=2.7e-07  Score=91.89  Aligned_cols=49  Identities=29%  Similarity=0.680  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ....|+||++.|...   .+++ |+|.||..||..|+.....||+||..+...
T Consensus        25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            447899999998664   3566 999999999999999888899999987654

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.31  E-value=1.5e-07  Score=72.20  Aligned_cols=49  Identities=31%  Similarity=0.761  Sum_probs=36.7

Q ss_pred             CcccccccccccC---------ceeEecCCCCccccHHhHHHHHhcC---CCCCcccccCC
Q 042750          129 CECAVCLNEFQEN---------EKLRIIPNCGHVFHIDCIDVWLQSN---ANCPLCRTSIS  177 (337)
Q Consensus       129 ~~C~ICl~~~~~~---------~~~~~lp~C~H~FH~~Ci~~Wl~~~---~~CPlCR~~l~  177 (337)
                      ..|.||.-.|...         +-..++-.|.|.||.+||.+|+...   .-||+||+...
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            4899999998642         2222333599999999999999753   44999998764

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=3.3e-07  Score=85.72  Aligned_cols=57  Identities=28%  Similarity=0.597  Sum_probs=44.9

Q ss_pred             cCCCCCCcccccccccccCc-------eeEecCCCCccccHHhHHHHH--hcCCCCCcccccCCCCC
Q 042750          123 FGERSFCECAVCLNEFQENE-------KLRIIPNCGHVFHIDCIDVWL--QSNANCPLCRTSISSTT  180 (337)
Q Consensus       123 ~~~~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~FH~~Ci~~Wl--~~~~~CPlCR~~l~~~~  180 (337)
                      ....++..|+||-..+....       ++-.|. |+|+||..||+-|-  ..+++||-|+..+....
T Consensus       219 tkhl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r  284 (328)
T KOG1734|consen  219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR  284 (328)
T ss_pred             CCCCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence            34456789999998886554       566676 99999999999995  45788999999886543

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=98.18  E-value=4.3e-07  Score=96.46  Aligned_cols=53  Identities=32%  Similarity=0.784  Sum_probs=40.2

Q ss_pred             CCCCCcccccccccccCc---eeEecCCCCccccHHhHHHHHhc--CCCCCcccccCC
Q 042750          125 ERSFCECAVCLNEFQENE---KLRIIPNCGHVFHIDCIDVWLQS--NANCPLCRTSIS  177 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l~  177 (337)
                      -.+..+|+||+..+..-+   .-...+.|.|.||..|+-+|+.+  +.+||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            355689999999886321   11223469999999999999976  667999998764

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.14  E-value=8.6e-07  Score=88.83  Aligned_cols=50  Identities=26%  Similarity=0.869  Sum_probs=38.6

Q ss_pred             CCccccccccccc---Cc-----------eeEecCCCCccccHHhHHHHHhcC-CCCCcccccCCC
Q 042750          128 FCECAVCLNEFQE---NE-----------KLRIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~---~~-----------~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~  178 (337)
                      ..+|+||+.++.-   +.           ...++| |.|+||..|+..|+... -.||+||.++.+
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4689999998742   11           123457 99999999999999954 489999998853

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.12  E-value=1.4e-06  Score=70.45  Aligned_cols=51  Identities=31%  Similarity=0.658  Sum_probs=38.4

Q ss_pred             Ccccccccccc-------------cCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          129 CECAVCLNEFQ-------------ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~-------------~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      +.|+||..-+-             .++-+..--.|+|.||..||.+||+++..||+|.+.+...
T Consensus        47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q  110 (114)
T KOG2930|consen   47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ  110 (114)
T ss_pred             chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence            57999876542             1222333336999999999999999999999998877544

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=98.11  E-value=1.9e-06  Score=59.64  Aligned_cols=34  Identities=35%  Similarity=0.928  Sum_probs=21.6

Q ss_pred             ccccccccccCc-eeEecCCCCccccHHhHHHHHhcC
Q 042750          131 CAVCLNEFQENE-KLRIIPNCGHVFHIDCIDVWLQSN  166 (337)
Q Consensus       131 C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~  166 (337)
                      |+||.+ |...+ ...+|+ |||+|+.+||++|+...
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence            899999 75544 567788 99999999999999853

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=98.11  E-value=2.3e-06  Score=60.88  Aligned_cols=42  Identities=26%  Similarity=0.913  Sum_probs=32.4

Q ss_pred             cccccccccccCceeEecCCCC-----ccccHHhHHHHHhc--CCCCCccc
Q 042750          130 ECAVCLNEFQENEKLRIIPNCG-----HVFHIDCIDVWLQS--NANCPLCR  173 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CPlCR  173 (337)
                      .|.||++. .+++...+.| |.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            48999993 3444455788 74     89999999999965  45799995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=1.7e-06  Score=80.99  Aligned_cols=52  Identities=31%  Similarity=0.830  Sum_probs=41.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHH-HHhcCCC-CCcccccCCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDV-WLQSNAN-CPLCRTSISSTTT  181 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~-Wl~~~~~-CPlCR~~l~~~~~  181 (337)
                      ..+..|+||++....   ...++ |||+||..||.. |-..+.- ||+||+.+.+...
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            446789999998655   45566 999999999999 9766655 9999998866543

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=3.5e-06  Score=85.14  Aligned_cols=51  Identities=29%  Similarity=0.667  Sum_probs=39.1

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-----CCCCCcccccCCCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-----NANCPLCRTSISSTTTT  182 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CPlCR~~l~~~~~~  182 (337)
                      +..|+|||+......   .+ .|||+||..||-.++..     ...||+||..|......
T Consensus       186 ~~~CPICL~~~~~p~---~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPV---RT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCccc---cc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            578999999965532   22 49999999999887754     35599999999775543

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=97.93  E-value=2.1e-06  Score=65.52  Aligned_cols=49  Identities=33%  Similarity=0.865  Sum_probs=23.7

Q ss_pred             CcccccccccccCc-e-eEecC--CCCccccHHhHHHHHhc----C-------CCCCcccccCC
Q 042750          129 CECAVCLNEFQENE-K-LRIIP--NCGHVFHIDCIDVWLQS----N-------ANCPLCRTSIS  177 (337)
Q Consensus       129 ~~C~ICl~~~~~~~-~-~~~lp--~C~H~FH~~Ci~~Wl~~----~-------~~CPlCR~~l~  177 (337)
                      .+|.||++.+..++ . ..+-+  .|++.||..||.+||..    +       .+||.|+.+|.
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            57999999876332 2 22222  69999999999999963    1       13999998874

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=97.89  E-value=4.3e-06  Score=80.62  Aligned_cols=48  Identities=29%  Similarity=0.775  Sum_probs=41.9

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      ..|.||.+.|..   ..++| |+|.||.-||+.+|..+..||.|+.++....
T Consensus        24 LRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   24 LRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             HHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            579999999977   45667 9999999999999999999999998886643

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=97.88  E-value=1e-05  Score=62.08  Aligned_cols=47  Identities=23%  Similarity=0.538  Sum_probs=36.3

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      ...|+||.+.|.+   ..++| |||.|...||..|+.. +.+||+|+..+..
T Consensus         4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            4689999999977   45677 9999999999999998 8889999988854

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.84  E-value=1.5e-05  Score=76.83  Aligned_cols=53  Identities=25%  Similarity=0.634  Sum_probs=38.7

Q ss_pred             CCcccccccc-cccCc-eeEecCCCCccccHHhHHHHHh-cCCCCCcccccCCCCCC
Q 042750          128 FCECAVCLNE-FQENE-KLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISSTTT  181 (337)
Q Consensus       128 ~~~C~ICl~~-~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlCR~~l~~~~~  181 (337)
                      +..|+||..+ |...+ ++.+.+ |||.||..||+..+. ....||.|+..+.....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f   58 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF   58 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence            3579999996 33333 333334 999999999999654 45679999998877653

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.83  E-value=6.7e-06  Score=75.62  Aligned_cols=45  Identities=33%  Similarity=0.877  Sum_probs=38.6

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRT  174 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~  174 (337)
                      .+...|+||++.|...   .++| |+|.||..||..|......||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            3457899999999887   6777 9999999999999885567999993

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.80  E-value=8.2e-06  Score=79.91  Aligned_cols=48  Identities=33%  Similarity=1.039  Sum_probs=35.8

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhc---CCCCCcccccC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS---NANCPLCRTSI  176 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CPlCR~~l  176 (337)
                      ..|.||.+-+-....+.-+-.|||+||..|+..|+..   +.+||+|+-.+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            5799995444444455544469999999999999986   45799999433

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=97.80  E-value=1e-05  Score=76.63  Aligned_cols=46  Identities=28%  Similarity=0.628  Sum_probs=38.8

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ...|-||-+-|...   ..++ |||.||.-||...|..+..||+||.+--
T Consensus        25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence            36799999988663   3445 9999999999999999999999997643

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=1.3e-05  Score=78.05  Aligned_cols=48  Identities=33%  Similarity=0.792  Sum_probs=41.4

Q ss_pred             CCCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...+|.|||.+-.+   +.+|| |.|. .|..|-+.....++.||+||+++..
T Consensus       289 ~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  289 SGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            35789999999554   78899 9998 9999999987778899999999854

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=97.72  E-value=1.5e-05  Score=79.46  Aligned_cols=51  Identities=33%  Similarity=0.855  Sum_probs=40.5

Q ss_pred             CCCCCCcccccccccccCc-eeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          124 GERSFCECAVCLNEFQENE-KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       124 ~~~~~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      +..+-.+|+||||-+.... .++... |.|.||..|+..|-  ..+||+||....
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            3344578999999997654 345555 99999999999995  468999998766

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=2.6e-05  Score=76.46  Aligned_cols=53  Identities=38%  Similarity=0.941  Sum_probs=41.0

Q ss_pred             CCCCcccccccccccCc----eeEecCCCCccccHHhHHHHHh--c-----CCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENE----KLRIIPNCGHVFHIDCIDVWLQ--S-----NANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl~--~-----~~~CPlCR~~l~~  178 (337)
                      ..+.+|.||++...+..    ...++|+|.|.||..||+.|-.  .     .+.||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            44678999999975543    2446688999999999999973  3     4679999987644

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.57  E-value=1.7e-05  Score=57.24  Aligned_cols=46  Identities=26%  Similarity=0.692  Sum_probs=34.4

Q ss_pred             CcccccccccccCceeEecCCCCcc-ccHHhHH-HHHhcCCCCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHV-FHIDCID-VWLQSNANCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~-~Wl~~~~~CPlCR~~l~~  178 (337)
                      .+|.||+|.-.+.    ++..|||. .+.+|-. .|-..+..||+||+++..
T Consensus         8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            7899999984432    23359998 8888854 554578899999998743

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=7.6e-05  Score=73.70  Aligned_cols=49  Identities=31%  Similarity=0.857  Sum_probs=37.4

Q ss_pred             CCcccccccccccC-ceeEecCCCCccccHHhHHHHHhc--CCCCCcccccC
Q 042750          128 FCECAVCLNEFQEN-EKLRIIPNCGHVFHIDCIDVWLQS--NANCPLCRTSI  176 (337)
Q Consensus       128 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l  176 (337)
                      ..+|+||++.+... +.-.+.+.|||.|..+||+.||..  ...||.|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            36899999998754 444455579999999999999953  23499996543

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=97.47  E-value=4.5e-05  Score=72.62  Aligned_cols=54  Identities=28%  Similarity=0.748  Sum_probs=44.2

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHh-----------------------cCCCCCcccccCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-----------------------SNANCPLCRTSISSTT  180 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----------------------~~~~CPlCR~~l~~~~  180 (337)
                      ....+|.|||.-|.+++...+++ |.|.||..|+.++|.                       ....||+||..|....
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            34568999999999999888898 999999999988762                       1234999999886654

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=1.7e-05  Score=76.94  Aligned_cols=51  Identities=33%  Similarity=0.653  Sum_probs=42.1

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTT  180 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~  180 (337)
                      .+..|+|||+-+..   .+..+.|.|-||.+||..-+.. +++||.||+.+....
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            35789999999866   4555679999999999988865 778999999887654

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=97.30  E-value=5e-05  Score=79.91  Aligned_cols=51  Identities=20%  Similarity=0.498  Sum_probs=42.0

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ...|++|+..+.++......+ |+|.||..||+.|-..-.+||+||......
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            457999999887766555555 999999999999999999999999865443

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=97.22  E-value=0.00028  Score=69.65  Aligned_cols=48  Identities=33%  Similarity=0.962  Sum_probs=39.8

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhc--CCCCCcccccCCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--NANCPLCRTSISSTT  180 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l~~~~  180 (337)
                      .-|.||-|.   +..+++-| |||..|..|+..|-..  .++||.||..|....
T Consensus       370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            469999886   44588888 9999999999999744  578999999986654

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.00022  Score=68.09  Aligned_cols=50  Identities=30%  Similarity=0.483  Sum_probs=39.1

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTTT  181 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~~  181 (337)
                      ..+|+||+...--   ...++ |+|.||..||+--... ..+|++||.++.....
T Consensus         7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~   57 (324)
T KOG0824|consen    7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID   57 (324)
T ss_pred             CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence            4689999998533   34566 9999999999977665 4569999999977643

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=97.11  E-value=0.00012  Score=54.82  Aligned_cols=47  Identities=26%  Similarity=0.740  Sum_probs=23.4

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      ..|++|.+.+.+.  +. +.+|.|+|+..||..-+.  ..||+|+.+....+
T Consensus         8 LrCs~C~~~l~~p--v~-l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEP--VC-LGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCC--ce-eccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            4699999998664  33 336999999999988554  34999988764433

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.00079  Score=67.43  Aligned_cols=50  Identities=38%  Similarity=0.871  Sum_probs=41.9

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...+.+|.||+..+..   ..++| |||.||..||++-+....-||+||..+..
T Consensus        81 ~~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            3567899999888766   45567 99999999999988777779999998865

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.58  E-value=0.0014  Score=64.64  Aligned_cols=47  Identities=34%  Similarity=0.877  Sum_probs=38.2

Q ss_pred             CcccccccccccC-ceeEecCCCCccccHHhHHHHHhcC--CCCCcccccC
Q 042750          129 CECAVCLNEFQEN-EKLRIIPNCGHVFHIDCIDVWLQSN--ANCPLCRTSI  176 (337)
Q Consensus       129 ~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CPlCR~~l  176 (337)
                      .-|..|-+.+-.. +.+..+| |.|+||..|+.+.|.++  .+||.||+-.
T Consensus       366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crklr  415 (518)
T KOG1941|consen  366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLR  415 (518)
T ss_pred             hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            5699998887544 4677888 99999999999999775  4599999433

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.0045  Score=59.94  Aligned_cols=48  Identities=27%  Similarity=0.474  Sum_probs=37.3

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI  176 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l  176 (337)
                      .....|+||+..-.++..+   ..-|-+||..||..++..++.||+=..+.
T Consensus       298 ~~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCCceE---EecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            4457899999997765322   22699999999999999999999864443

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.00089  Score=70.84  Aligned_cols=50  Identities=26%  Similarity=0.842  Sum_probs=38.6

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTTT  181 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~~  181 (337)
                      -..|++|-.-+.+   . ++++|+|+||..||..-+.. +..||.|.+...+.+.
T Consensus       643 ~LkCs~Cn~R~Kd---~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  643 LLKCSVCNTRWKD---A-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             ceeCCCccCchhh---H-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            3689999866544   2 33469999999999999865 6679999988866543

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.49  E-value=0.0048  Score=56.95  Aligned_cols=51  Identities=24%  Similarity=0.647  Sum_probs=42.6

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc--------CCCCCcccccCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--------NANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CPlCR~~l~~~~  180 (337)
                      ..-|..|-..+..++.++..  |-|.||..|+++|-..        ...||.|...|.+..
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            35699999999999988765  9999999999999743        234999999998764

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=96.37  E-value=0.0019  Score=64.82  Aligned_cols=54  Identities=22%  Similarity=0.643  Sum_probs=44.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTT  182 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~~  182 (337)
                      ..+..|++|...+.+.-..  . .|||.||..|+..|+..+..||.|+..+......
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL   72 (391)
T ss_pred             cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhcc
Confidence            4457899999998776432  3 4999999999999999999999998887665543

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=96.32  E-value=0.0015  Score=55.83  Aligned_cols=35  Identities=26%  Similarity=0.722  Sum_probs=28.6

Q ss_pred             CCcccccccccccCceeEecCCCC------ccccHHhHHHHH
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCG------HVFHIDCIDVWL  163 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~------H~FH~~Ci~~Wl  163 (337)
                      ..+|+||++.+...+.++.++ |+      |.||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence            368999999998855566666 65      789999999994

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]

Probab=96.23  E-value=0.0032  Score=70.37  Aligned_cols=67  Identities=24%  Similarity=0.603  Sum_probs=47.6

Q ss_pred             HHhCCceeeccccccccCCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-----C-----CCCCcccccC
Q 042750          107 IRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-----N-----ANCPLCRTSI  176 (337)
Q Consensus       107 i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~-----~~CPlCR~~l  176 (337)
                      -.-||-+..++..   .....++.|.||+.+--.....+.|. |+|+||..|.+.-|++     +     -.||+|+.+|
T Consensus      3468 E~CLPCl~Cdks~---tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3468 EHCLPCLHCDKSA---TKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             hhcccccccChhh---hhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            3446666655543   23455688999998866666677775 9999999998876653     2     2499999877


Q ss_pred             C
Q 042750          177 S  177 (337)
Q Consensus       177 ~  177 (337)
                      .
T Consensus      3544 n 3544 (3738)
T KOG1428|consen 3544 N 3544 (3738)
T ss_pred             h
Confidence            4

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=96.16  E-value=0.0046  Score=45.37  Aligned_cols=41  Identities=27%  Similarity=0.728  Sum_probs=27.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc--CCCCCc
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--NANCPL  171 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPl  171 (337)
                      ...|+|.+..|.+.  ++-. .|+|+|-...|..|++.  ...||+
T Consensus        11 ~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            46899999998764  5444 49999999999999944  344998

>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.12  E-value=0.0018  Score=56.82  Aligned_cols=30  Identities=23%  Similarity=0.748  Sum_probs=27.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccH
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHI  156 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~  156 (337)
                      +...+|.||||++..++.+..|| |-.+||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            34468999999999999999999 9999996

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.00  E-value=0.0036  Score=63.95  Aligned_cols=54  Identities=26%  Similarity=0.596  Sum_probs=40.4

Q ss_pred             ccCCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-----CCCCCcccccCCCC
Q 042750          122 DFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-----NANCPLCRTSISST  179 (337)
Q Consensus       122 ~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CPlCR~~l~~~  179 (337)
                      .....+..+|.+|-+.-++   ..... |.|.||..||.++...     +.+||.|...+.-.
T Consensus       530 ~~enk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             CccccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            3345566799999987443   33444 9999999999998753     67899998877554

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.0056  Score=59.82  Aligned_cols=51  Identities=22%  Similarity=0.473  Sum_probs=41.7

Q ss_pred             CCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          124 GERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       124 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...++..|+||+..-   ......| |+|.-|.+||.+-|.+.+.|=.|++.+..
T Consensus       418 p~sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            445678999998763   2244567 99999999999999999999999998754

>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A

Probab=95.74  E-value=0.006  Score=42.92  Aligned_cols=41  Identities=34%  Similarity=0.955  Sum_probs=26.5

Q ss_pred             ccccccccccCceeEecC-CCCc---cccHHhHHHHHhc--CCCCCcc
Q 042750          131 CAVCLNEFQENEKLRIIP-NCGH---VFHIDCIDVWLQS--NANCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~~--~~~CPlC  172 (337)
                      |-||++.-..+. ..+.| .|.-   ..|..|+.+|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            779999876655 34466 2333   6899999999974  5669987

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.64  E-value=0.0098  Score=56.40  Aligned_cols=49  Identities=31%  Similarity=0.545  Sum_probs=36.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc--CCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--NANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l~  177 (337)
                      ..+.+|++|-+.-..+  ....+ |+|+||..||..-+..  ..+||.|-..+.
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            4567999998874443  33444 9999999999987654  367999987765

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=95.54  E-value=0.0055  Score=49.33  Aligned_cols=31  Identities=35%  Similarity=0.890  Sum_probs=26.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHH
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCID  160 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~  160 (337)
                      ...|++|-..+.. ....+.| |||+||..|++
T Consensus        78 ~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   78 STKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            4679999999977 5677788 99999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=95.54  E-value=0.0034  Score=60.84  Aligned_cols=50  Identities=26%  Similarity=0.622  Sum_probs=40.2

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ..-+|.+|-..|-+...+  . .|-|.||..||...|....+||.|...+-..
T Consensus        14 ~~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            346899998887664322  3 4999999999999999999999998777543

>PHA03096 p28-like protein; Provisional

Probab=95.48  E-value=0.007  Score=58.19  Aligned_cols=46  Identities=26%  Similarity=0.639  Sum_probs=33.5

Q ss_pred             CcccccccccccC----ceeEecCCCCccccHHhHHHHHhc---CCCCCcccc
Q 042750          129 CECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQS---NANCPLCRT  174 (337)
Q Consensus       129 ~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CPlCR~  174 (337)
                      -.|.||++.....    ..-..|++|.|.|+..||..|...   ..+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            4799999997653    244467799999999999999754   233555543

>PHA02862 5L protein; Provisional

Probab=95.33  E-value=0.012  Score=50.81  Aligned_cols=47  Identities=30%  Similarity=0.745  Sum_probs=34.6

Q ss_pred             CcccccccccccCceeEecCCCC-----ccccHHhHHHHHhc--CCCCCcccccCCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCG-----HVFHIDCIDVWLQS--NANCPLCRTSISSTT  180 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CPlCR~~l~~~~  180 (337)
                      ..|-||+++-.+.    .-| |.     ...|..|+.+|+..  +..|++|+.......
T Consensus         3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~   56 (156)
T PHA02862          3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK   56 (156)
T ss_pred             CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence            5799999984332    245 54     46999999999965  456999998775544

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=95.22  E-value=0.011  Score=41.90  Aligned_cols=45  Identities=29%  Similarity=0.705  Sum_probs=22.1

Q ss_pred             ccccccccccCceeEecC-CCCccccHHhHHHHHh-cCCCCCcccccC
Q 042750          131 CAVCLNEFQENEKLRIIP-NCGHVFHIDCIDVWLQ-SNANCPLCRTSI  176 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp-~C~H~FH~~Ci~~Wl~-~~~~CPlCR~~l  176 (337)
                      |++|.+++...+ ....| .|++.++..|...-+. .+..||-||.+.
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999984433 23344 4899999999888776 467799999763

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=95.22  E-value=0.009  Score=54.21  Aligned_cols=46  Identities=22%  Similarity=0.561  Sum_probs=38.1

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI  176 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l  176 (337)
                      -...|.||-++|...   ++. .|||.||..|...-++....|-+|.+..
T Consensus       195 IPF~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         195 IPFLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             Cceeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence            346899999999874   344 4999999999999888889999997654

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.06  E-value=0.014  Score=57.25  Aligned_cols=45  Identities=36%  Similarity=0.724  Sum_probs=33.0

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ....|.||+++..+   ...+| |||.-+  |..--.. ...||+||..+..
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~~-l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSKH-LPQCPVCRQRIRL  348 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHHhh-CCCCchhHHHHHH
Confidence            34679999999766   66778 999966  6555422 3459999988753

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.97  E-value=0.013  Score=58.45  Aligned_cols=47  Identities=26%  Similarity=0.729  Sum_probs=38.1

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc--------CCCCCcccc
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--------NANCPLCRT  174 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CPlCR~  174 (337)
                      ....|.||+++.........+| |+|+||..|+..++..        .-.||-|+-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3478999999987778899999 9999999999999853        234877654

>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]

Probab=94.86  E-value=0.013  Score=62.90  Aligned_cols=51  Identities=29%  Similarity=0.786  Sum_probs=38.1

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-------CCCCCccccc
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-------NANCPLCRTS  175 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-------~~~CPlCR~~  175 (337)
                      .....+|.||++.+.....+---..|-|+||..||..|-..       .-.||.|...
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            34457999999998776554433358899999999999754       1239999843

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=94.68  E-value=0.011  Score=54.98  Aligned_cols=63  Identities=22%  Similarity=0.456  Sum_probs=41.4

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCCCCCCCCCcccccCCC
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPS  196 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~~~~~~~~~~~~~~~~  196 (337)
                      .|..|..--. ++...++. |.|+||..|...-.  ...||+|+..+.....+...+..+.....+.
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~ir~i~l~~slp~~ik~~F~d~   67 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSIRIIQLNRSLPTDIKSYFADP   67 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccCC--ccccccccceeeeeecccccchhHHHHccCc
Confidence            4787766544 66676665 99999999976532  3389999999766655444434444444333

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.56  E-value=0.032  Score=52.23  Aligned_cols=53  Identities=13%  Similarity=0.360  Sum_probs=46.5

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      ...|+||.+.+.+.....+|..|||+|+.+|.++.+.....||+|-.++....
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            46899999999998888888789999999999999999999999987775443

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=94.54  E-value=0.035  Score=48.83  Aligned_cols=50  Identities=22%  Similarity=0.636  Sum_probs=35.1

Q ss_pred             CCCCcccccccccccCceeEecC-CCCc---cccHHhHHHHHhc--CCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIP-NCGH---VFHIDCIDVWLQS--NANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~~--~~~CPlCR~~l~~~  179 (337)
                      ..+..|-||.++-.  ..  ..| .|..   ..|..|+.+|+..  ...|++|+......
T Consensus         6 ~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            34578999998843  22  245 2444   5799999999965  45699998876444

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=94.01  E-value=0.032  Score=53.61  Aligned_cols=48  Identities=31%  Similarity=0.700  Sum_probs=36.1

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHh-cCCCCCcccc-cCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRT-SISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlCR~-~l~~~  179 (337)
                      ..|+.|-.-+...-+   +|.|+|.||.+||..-|. ....||.|.+ +|..+
T Consensus       275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld  324 (427)
T COG5222         275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD  324 (427)
T ss_pred             ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence            579999888766433   367999999999997764 5678999954 44433

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.93  E-value=0.064  Score=50.86  Aligned_cols=52  Identities=23%  Similarity=0.515  Sum_probs=40.8

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ....+.|+|+..+|........+..|||+|-..||.+.- ....||+|-.++.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            355689999999996655666665699999999999973 3567999977764

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=93.72  E-value=0.051  Score=53.20  Aligned_cols=70  Identities=23%  Similarity=0.423  Sum_probs=48.3

Q ss_pred             CHHHHHhCCceeeccccccccCCCCCCcccccccccccCceeEecCCCCccccHHhHHH--HHhcCCCCCcccccCCCC
Q 042750          103 DEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDV--WLQSNANCPLCRTSISST  179 (337)
Q Consensus       103 ~~~~i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~--Wl~~~~~CPlCR~~l~~~  179 (337)
                      .+..+..-|.+.....+   ....+..-|.||-+...-   ..++| |+|..|--|--+  .|...+.||+||..+...
T Consensus        39 kKNnlsaEPnlttsSad---dtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V  110 (493)
T COG5236          39 KKNNLSAEPNLTTSSAD---DTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAV  110 (493)
T ss_pred             cccccccCCcccccccc---ccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence            33444555665444443   334455679999988654   67888 999999999654  366788999999877543

>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.68  E-value=0.04  Score=49.27  Aligned_cols=30  Identities=37%  Similarity=1.020  Sum_probs=24.2

Q ss_pred             CCCccccHHhHHHHHhc----C-------CCCCcccccCCC
Q 042750          149 NCGHVFHIDCIDVWLQS----N-------ANCPLCRTSISS  178 (337)
Q Consensus       149 ~C~H~FH~~Ci~~Wl~~----~-------~~CPlCR~~l~~  178 (337)
                      +||.-||.-|+..||..    +       ..||.|..++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            59999999999999964    1       239999887753

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=93.64  E-value=0.038  Score=38.15  Aligned_cols=41  Identities=22%  Similarity=0.703  Sum_probs=23.6

Q ss_pred             ccccccccccCceeEecCCCCccccHHhHHHHHhcCC--CCCcc
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA--NCPLC  172 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CPlC  172 (337)
                      |.+|-+....|..-... .|+=.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67787777666544222 4888999999999998755  69988

; PDB: 3NW0_A 2CT0_A.

>KOG1940 consensus Zn-finger protein [General function prediction only]

Probab=93.04  E-value=0.048  Score=52.15  Aligned_cols=66  Identities=23%  Similarity=0.572  Sum_probs=46.9

Q ss_pred             CcccccccccccCc-eeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCCCCCCCCCcccccCCCCCC
Q 042750          129 CECAVCLNEFQENE-KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPFDRIIAPSSTP  199 (337)
Q Consensus       129 ~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~~~~~~~~~~~~~~~~~~p  199 (337)
                      .-|+||.+.+.... .+..++ |||..|..|+......+-+||+|.+ +...   ...+.-++..+...++|
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~---~~~~~~~d~~l~~~~~p  225 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDM---SHYFRKLDKELAGSPMP  225 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHH---HHHHHHHHHHHhcCCCC
Confidence            34999999987665 444555 9999999999999888899999988 4322   22334455555555443

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.92  E-value=0.039  Score=52.91  Aligned_cols=45  Identities=24%  Similarity=0.524  Sum_probs=37.5

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI  176 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l  176 (337)
                      .+.|-||...|..+   ++. .|+|.||..|...=++....|++|.+.+
T Consensus       241 Pf~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc---hhh-cCCceeehhhhccccccCCcceeccccc
Confidence            35699999999874   334 4999999999998888889999997665

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.90  E-value=0.0082  Score=59.34  Aligned_cols=52  Identities=25%  Similarity=0.724  Sum_probs=43.5

Q ss_pred             CCcccccccccccC-ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          128 FCECAVCLNEFQEN-EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      ...|+||.+.+... +++..+- |||.+|.+||.+||.....||.|++.+....
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~  248 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG  248 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence            35799999998776 5565564 9999999999999999888999999886543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=92.53  E-value=0.067  Score=38.91  Aligned_cols=45  Identities=27%  Similarity=0.615  Sum_probs=32.0

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ..|..|...   +.+-.++| |+|..+..|.+-|  .-+.||.|.+++...
T Consensus         8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD   52 (55)
T ss_pred             eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence            346555444   44456777 9999999998775  345699999888553

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.52  E-value=0.026  Score=53.99  Aligned_cols=42  Identities=29%  Similarity=0.729  Sum_probs=31.7

Q ss_pred             CCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ..-|+||++.-.+   ...|+ |||. -|..|-...    +.||+||+-|.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence            4679999998443   66787 9997 677785553    37999998663

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.46  E-value=0.095  Score=50.14  Aligned_cols=48  Identities=29%  Similarity=0.845  Sum_probs=38.2

Q ss_pred             CCcccccccccccCc---eeEecCCCCccccHHhHHHHHhc-CCCCCcccccC
Q 042750          128 FCECAVCLNEFQENE---KLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSI  176 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l  176 (337)
                      ...|-||-++|...+   ..+++ +|||.|+..|+..-+.. ...||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            357999999998764   34455 49999999999887755 34599999986

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=92.10  E-value=0.065  Score=51.78  Aligned_cols=43  Identities=35%  Similarity=0.730  Sum_probs=30.4

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI  176 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l  176 (337)
                      -.|.-|--.  ..-.-|++| |+|+||.+|-..  ...+.||.|-..|
T Consensus        91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            357777433  333456788 999999999765  4467899996554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.61  E-value=0.089  Score=56.75  Aligned_cols=41  Identities=24%  Similarity=0.786  Sum_probs=31.1

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCccccc
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTS  175 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~  175 (337)
                      ..|..|-..+.-+  .... .|||.||.+|+.   .....||-|+..
T Consensus       841 skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccc--eeee-ecccHHHHHhhc---cCcccCCccchh
Confidence            5799998877554  3333 399999999998   445679999763

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.40  E-value=0.062  Score=56.32  Aligned_cols=44  Identities=30%  Similarity=0.683  Sum_probs=34.5

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCccccc
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTS  175 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~  175 (337)
                      ..|.||+..|......-+.+.|||..|..|+..-+  +.+|| |+.+
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~D   55 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKRD   55 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCcc
Confidence            57999999988776555555799999999998854  57899 6543

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=91.30  E-value=0.11  Score=55.49  Aligned_cols=23  Identities=39%  Similarity=1.041  Sum_probs=21.3

Q ss_pred             CCCccccHHhHHHHHhcCCCCCc
Q 042750          149 NCGHVFHIDCIDVWLQSNANCPL  171 (337)
Q Consensus       149 ~C~H~FH~~Ci~~Wl~~~~~CPl  171 (337)
                      .|+|+.|..|..+|+.....||-
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            49999999999999999999984

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=89.94  E-value=0.23  Score=48.70  Aligned_cols=55  Identities=25%  Similarity=0.487  Sum_probs=37.3

Q ss_pred             CCCCCcccccccccccCcee-EecCCCCccccHHhHHHHHh-cCCCCCcccccCCCCC
Q 042750          125 ERSFCECAVCLNEFQENEKL-RIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISSTT  180 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlCR~~l~~~~  180 (337)
                      +.+++-|+.|+|++...++- .-.| ||...|.-|....-+ .+..||-||+......
T Consensus        11 edeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            34456699999999876643 2334 898877777444322 2667999998876544

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=89.76  E-value=0.13  Score=55.02  Aligned_cols=46  Identities=35%  Similarity=0.847  Sum_probs=35.4

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhc--CCCCCcccccCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--NANCPLCRTSISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l~~~  179 (337)
                      ..|.||++    .+...+.+ |+|.||..|+..-+..  ..-||+||..+...
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            68999999    33455566 9999999999888755  23499999877544

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.54  E-value=0.21  Score=54.17  Aligned_cols=35  Identities=29%  Similarity=0.663  Sum_probs=27.8

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHH
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWL  163 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl  163 (337)
                      ....|.+|.-.+... .-.+.| |||.||.+||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            357899999888665 455667 99999999998764

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.35  E-value=0.57  Score=34.04  Aligned_cols=33  Identities=33%  Similarity=1.036  Sum_probs=29.2

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHH
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDV  161 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~  161 (337)
                      .-|.+|-+.|..++.+.+-|.|+-.+|.+|-+.
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            569999999998888999999999999999443

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=87.96  E-value=0.17  Score=56.94  Aligned_cols=48  Identities=25%  Similarity=0.798  Sum_probs=39.1

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...|.||++.+.....+.   .|||.++..|+..|+..+..||.|+.....
T Consensus      1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi~~d 1200 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSIKGD 1200 (1394)
T ss_pred             ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhhhhh
Confidence            458999999988543332   499999999999999999999999855443

>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus []

Probab=86.52  E-value=0.73  Score=36.79  Aligned_cols=37  Identities=14%  Similarity=0.076  Sum_probs=24.4

Q ss_pred             CCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042750           30 SSHNSDTSFPVIAIAIVGILATGFLLVSYYIFVIKCC   66 (337)
Q Consensus        30 ~~~sS~~~f~ilviiii~il~~~~lLi~~~~~~~~cc   66 (337)
                      ..++|+..|..++.++|.+++.+.++.+.|.+++|=|
T Consensus        26 ~p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDl   62 (91)
T PF01708_consen   26 APSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDL   62 (91)
T ss_pred             CCCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHH
Confidence            3466778888877777777666666666666655533

; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.51  E-value=0.43  Score=43.90  Aligned_cols=39  Identities=26%  Similarity=0.722  Sum_probs=29.3

Q ss_pred             ccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCC
Q 042750          131 CAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       131 C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      |-.|-+.   +..+..+| |.|. +|..|=..    -.+||+|+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            8888766   45588899 9987 88889543    356999987664

>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=86.20  E-value=0.64  Score=50.24  Aligned_cols=54  Identities=20%  Similarity=0.580  Sum_probs=39.2

Q ss_pred             CCCcccccccccccCceeEecCCCCc-----cccHHhHHHHHhc--CCCCCcccccCCCCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGH-----VFHIDCIDVWLQS--NANCPLCRTSISSTTTT  182 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H-----~FH~~Ci~~Wl~~--~~~CPlCR~~l~~~~~~  182 (337)
                      ++..|-||..+=..++.+ .-| |..     ..|.+|+.+|+.-  ...|-+|+.++...+.+
T Consensus        11 d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY   71 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY   71 (1175)
T ss_pred             cchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence            347899999886665544 345 543     4899999999975  34599999888766543

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=84.33  E-value=0.82  Score=45.47  Aligned_cols=27  Identities=30%  Similarity=1.054  Sum_probs=20.0

Q ss_pred             CCccccHHhHHHHHhc-------------CCCCCcccccC
Q 042750          150 CGHVFHIDCIDVWLQS-------------NANCPLCRTSI  176 (337)
Q Consensus       150 C~H~FH~~Ci~~Wl~~-------------~~~CPlCR~~l  176 (337)
                      |.-.+|.+|+-+|+..             +-.||.||+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            3345789999999743             34599999864

They are purported to be transmembrane protein-precursors but their function is unknown.

>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=82.23  E-value=0.8  Score=43.64  Aligned_cols=51  Identities=27%  Similarity=0.698  Sum_probs=36.6

Q ss_pred             CCcccccccccccCce-eEecCCCC-----ccccHHhHHHHHh--cCCCCCcccccCCCC
Q 042750          128 FCECAVCLNEFQENEK-LRIIPNCG-----HVFHIDCIDVWLQ--SNANCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~FH~~Ci~~Wl~--~~~~CPlCR~~l~~~  179 (337)
                      ...|-||.++...... ....| |.     +..|..|++.|+.  ....|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4679999998654432 34455 64     4589999999997  456699998766443

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=81.79  E-value=1.8  Score=38.15  Aligned_cols=33  Identities=18%  Similarity=0.586  Sum_probs=21.1

Q ss_pred             CCcccccccccccCceeEecC------C-----CCc-cccHHhHHHHH
Q 042750          128 FCECAVCLNEFQENEKLRIIP------N-----CGH-VFHIDCIDVWL  163 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp------~-----C~H-~FH~~Ci~~Wl  163 (337)
                      +..|+||||--.+.   .+|-      +     |+- .=|..|++++-
T Consensus         2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence            45799999985543   2222      1     332 35788999985

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=81.59  E-value=1.2  Score=42.74  Aligned_cols=51  Identities=27%  Similarity=0.658  Sum_probs=36.6

Q ss_pred             cccccccc-cccCc-eeEecCCCCccccHHhHHHHHhcC-CCCCcccccCCCCCC
Q 042750          130 ECAVCLNE-FQENE-KLRIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISSTTT  181 (337)
Q Consensus       130 ~C~ICl~~-~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~~~~  181 (337)
                      .|++|-.+ |...+ .+.+-+ |+|..|..|++..+..+ ..||.|-..+.....
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf   55 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKNNF   55 (300)
T ss_pred             CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence            48889766 44444 333334 99999999999988664 459999777765543

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=81.11  E-value=0.7  Score=43.36  Aligned_cols=51  Identities=27%  Similarity=0.590  Sum_probs=37.6

Q ss_pred             CCCccccccccc-ccCc-eeEecCCCCccccHHhHHHHHhcC-CCCC--cccccCC
Q 042750          127 SFCECAVCLNEF-QENE-KLRIIPNCGHVFHIDCIDVWLQSN-ANCP--LCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~-~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP--lCR~~l~  177 (337)
                      .+..|+||..+- -.++ ++.+-|.|-|..|..|+++-+... .-||  -|-+-+.
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR   64 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR   64 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence            345799999873 3333 555666799999999999998764 4599  8855443

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	337
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-12
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		4e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		8e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		9e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-04

>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5 Length = 55

Iteration: 1
 Score = 70.9 bits (172), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 25/44 (56%), Positives = 34/44 (77%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           ECAVCL E ++ E+ R +P CGH FH +C+D+WL S++ CPLCR
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein 38 Length = 75

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 30/43 (69%), Gaps = 1/43 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           C VC+ +F+  + LR++P C H FH  C+D WL++N  CP+CR
Sbjct: 26  CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain Length = 69

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/44 (45%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           +C +CL+  +E E +R +P C H+FH  C+D WL +N  CP+CR
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/44 (43%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           EC VC  ++   E +R +P C H+FH  CI  WL+ + +CP+CR
Sbjct: 17  ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 44.3 bits (103), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC 172
           CAVCL +F+  ++L I P C H FH  C+  WL+    CPLC
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           C +C +E+ + +    +P C H FH  C+ +WLQ +  CP+CR
Sbjct: 43  CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	337
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-29
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-27
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	7e-24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-24
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-21
2ect_A	78	Ring finger protein 126; metal binding protein, st	9e-20
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-19
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	8e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	7e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	9e-16
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	7e-14
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	5e-13
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	7e-13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	8e-10
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	7e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-07
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-06
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	6e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	6e-06
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	1e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	6e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	3e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	7e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	8e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	9e-04

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score =  107 bits (269), Expect = 1e-29
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 105 AVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ 164
                +P ++F         +     C VC+ +F+  + LR++P C H FH  C+D WL+
Sbjct: 4   GSSGQLPSYRFNPNN----HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLK 58

Query: 165 SNANCPLCRTSISSTT 180
           +N  CP+CR     ++
Sbjct: 59  ANRTCPICRADSGPSS 74

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score =  101 bits (254), Expect = 1e-27
 Identities = 25/47 (53%), Positives = 36/47 (76%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
           ECAVCL E ++ E+ R +P CGH FH +C+D+WL S++ CPLCR ++
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score = 92.8 bits (231), Expect = 7e-24
 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 5/91 (5%)

Query: 87  LEHLIAHSPALE-TRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLR 145
           + H   H   +       +  I A+P     +             C +C +E+ + +   
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTED---HGAVGQEMCCPICCSEYVKGDVAT 57

Query: 146 IIPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
            +P C H FH  C+ +WLQ +  CP+CR   
Sbjct: 58  ELP-CHHYFHKPCVSIWLQKSGTCPVCRCMF 87

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 92.0 bits (229), Expect = 7e-24
 Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 116 KKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTS 175
           K+       E +  +C +CL+  +E E +R +P C H+FH  C+D WL +N  CP+CR  
Sbjct: 2   KQDGEEGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVD 60

Query: 176 ISSTTTTPT 184
           I +   + +
Sbjct: 61  IEAQLPSES 69

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 84.8 bits (210), Expect = 4e-21
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTP 183
            CAVCL +F+  ++L I P C H FH  C+  WL+    CPLC   +       
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS 69

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 81.3 bits (201), Expect = 9e-20
 Identities = 20/47 (42%), Positives = 30/47 (63%), Gaps = 1/47 (2%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
           EC VC  ++   E +R +P C H+FH  CI  WL+ + +CP+CR S+
Sbjct: 17  ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 79.6 bits (197), Expect = 2e-19
 Identities = 14/49 (28%), Positives = 22/49 (44%)

Query: 129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS 177
             C +CL +   +  +  +  CGH+ H  C +  L+    CPLC    S
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 76.1 bits (187), Expect = 8e-18
 Identities = 14/43 (32%), Positives = 24/43 (55%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           C  C  E ++ + + +   C H FH  C+ +W++ N  CPLC+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 73.2 bits (180), Expect = 7e-17
 Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 5/53 (9%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTT 182
           EC +C+    +     I+P C H F   CID W   + NCP+CR  ++    +
Sbjct: 17  ECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANES 64

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 70.1 bits (172), Expect = 9e-16
 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS 178
            C +CL +        +   C H F   CI  W++ N  CPLC+  + S
Sbjct: 7   RCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 64.9 bits (158), Expect = 7e-14
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 130 ECAVCLNEFQENEKLRIIP---NCGHVFHIDCIDVWLQSNANCPLCRTSISS 178
            C +C++ + E  +   +     CGHVF   C+   L++   CP CR  I+ 
Sbjct: 17  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 62.5 bits (152), Expect = 5e-13
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 3/57 (5%)

Query: 130 ECAVCLNEFQENEKLRIIP---NCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTP 183
            C +C++ + E  +   +     CGHVF   C+   L++   CP CR  I+     P
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 61

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 62.2 bits (151), Expect = 7e-13
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 3/57 (5%)

Query: 130 ECAVCLNEFQENEKLRIIP---NCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTP 183
            C +C++ + E  +   +     CGHVF   C+   L++   CP CR  I+     P
Sbjct: 12  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 68

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 62.2 bits (150), Expect = 2e-12
 Identities = 15/53 (28%), Positives = 18/53 (33%)

Query: 121 RDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           R+       EC          E       C H FH  CI  WL++   CPL  
Sbjct: 44  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 60.7 bits (147), Expect = 4e-12
 Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 4/59 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISSTTTTPTTFL 187
            C +C+ + ++    R+ P+C  +    CI  WL    A CP CR  +         + 
Sbjct: 24  RCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWA 79

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 59.5 bits (143), Expect = 2e-11
 Identities = 15/53 (28%), Positives = 18/53 (33%)

Query: 121 RDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
           R+       EC          E       C H FH  CI  WL++   CPL  
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 54.8 bits (132), Expect = 3e-10
 Identities = 15/48 (31%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS 177
           ECA+CL          +   C HVF   C+         C LCR  I 
Sbjct: 17  ECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 53.6 bits (129), Expect = 8e-10
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST 179
            C++C     +      I  C H F   CI      +  CP C   +  T
Sbjct: 17  LCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT 63

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 52.6 bits (126), Expect = 2e-09
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN--CPLCRTSI 176
            C +C +   + +       CG   H+ C+  + QSNA   CP C    
Sbjct: 17  ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 52.1 bits (125), Expect = 3e-09
 Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 4/45 (8%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRT 174
            C +C   FQ      ++  C H F   C     ++   C +C  
Sbjct: 17  RCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQ 57

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 56.7 bits (136), Expect = 4e-09
 Identities = 23/66 (34%), Positives = 29/66 (43%), Gaps = 7/66 (10%)

Query: 126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSISSTTTTPT 184
            +F  C +C     EN+K   I  CGH+    C+  W +S    CP CR  I    T P 
Sbjct: 330 STFQLCKICA----ENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG--TEPI 383

Query: 185 TFLPFD 190
              PFD
Sbjct: 384 VVDPFD 389

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 52.1 bits (125), Expect = 7e-09
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 5/65 (7%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFLPF 189
            C +C   F +      I  C H F   CI  +L+++  CP+C   +    T P   +  
Sbjct: 17  MCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK--TRPLLNIRS 71

Query: 190 DRIIA 194
           D+ + 
Sbjct: 72  DKTLQ 76

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 52.0 bits (124), Expect = 2e-08
 Identities = 25/99 (25%), Positives = 40/99 (40%), Gaps = 6/99 (6%)

Query: 80  LSRNRRNLEHLIAHSPALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQ 139
           L+R++++ E +I      E     E   +     +       D  E    +C +C   F 
Sbjct: 18  LNRSKKDFEAIIQAK-NKELEQTKEEKEKMQAQKEEVLSHMNDVLENEL-QCIICSEYFI 75

Query: 140 ENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS 178
           E     +  NC H F   CI+ W++    CP+CR  I S
Sbjct: 76  EA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKS 110

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 51.3 bits (122), Expect = 2e-08
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 130 ECAVCLNEFQENEKLRIIP---NCGHVFHIDCIDVWLQSNANCPLCRTSISS 178
            C +C++ + E  +   +     CGHVF   C+   L++   CP CR  I+ 
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 60

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 48.6 bits (115), Expect = 2e-07
 Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 3/67 (4%)

Query: 114 QFKKKASRDFGERSFCECAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCP 170
              K+    +       C +C++ + E   N +L +   CGHVF   C+   L++   CP
Sbjct: 58  INHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 117

Query: 171 LCRTSIS 177
            CR  I+
Sbjct: 118 TCRKKIN 124

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster} Length = 381

 Score = 53.7 bits (128), Expect = 3e-08
 Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 15/68 (22%)

Query: 130 ECAVCLNEFQENEKLRII----PNCGHVFHIDCIDVWLQSN-----------ANCPLCRT 174
            C +C     +  ++ ++      C    H  C++ W ++              CP C+ 
Sbjct: 310 RCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKA 369

Query: 175 SISSTTTT 182
            +S++   
Sbjct: 370 KLSTSFAA 377

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 49.7 bits (119), Expect = 3e-08
 Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 3/55 (5%)

Query: 126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN---CPLCRTSIS 177
           R   EC +C+  F E +    + +CGH     C++  L S+ N   CP C     
Sbjct: 13  REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 48.2 bits (115), Expect = 1e-07
 Identities = 15/57 (26%), Positives = 21/57 (36%), Gaps = 3/57 (5%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFL 187
           C +C   F       IIP C H +   CI  +L     CP C  +++         L
Sbjct: 25  CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRIL 78

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 48.3 bits (114), Expect = 2e-07
 Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 19/64 (29%)

Query: 130 ECAVCLNEFQE--------------NEKLRIIPNCGHVFHIDCIDVWLQSNAN-----CP 170
           +C +C+ +                    +  +  C H FH+ C+     +        CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 171 LCRT 174
            C+T
Sbjct: 87  SCKT 90

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 47.8 bits (113), Expect = 1e-06
 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 7/66 (10%)

Query: 125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN--CPLCRTSISSTTTT 182
             +   C +C +   + +       CG   H+ C+  + QSNA   CP C          
Sbjct: 177 PDAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW--PHEI 231

Query: 183 PTTFLP 188
           P  F P
Sbjct: 232 PKVFDP 237

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 42.6 bits (100), Expect = 6e-06
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 130 ECAVCLNEFQENEKLRIIPN-CGHVFHIDCIDVWLQSN-ANCPLCRTSISSTTTTPTTF 186
            C  C      N  L+++ N CGH     C+D+       NCP C T +  +      F
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLF 63

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 42.8 bits (100), Expect = 6e-06
 Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 1/63 (1%)

Query: 119 ASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSIS 177
           +     +    EC +C+   + ++       CG+     C        N  CP CR    
Sbjct: 2   SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 61

Query: 178 STT 180
              
Sbjct: 62  EDP 64

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 43.7 bits (103), Expect = 7e-06
 Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 5/57 (8%)

Query: 129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCI-DVWLQSNANCPLCRTSISSTTTTPT 184
           C+C +C+    E   L     C H     C      +++  CP CR  +SS T   T
Sbjct: 16  CQCGICMEILVEPVTL----PCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHT 68

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 42.1 bits (99), Expect = 9e-06
 Identities = 15/67 (22%), Positives = 20/67 (29%), Gaps = 11/67 (16%)

Query: 114 QFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWL-QSNANCPLC 172
            F K     +      +C  C               CGH F   C+   L  S+  C  C
Sbjct: 7   GFVKTVEDKY------KCEKCHLVLCS----PKQTECGHRFCESCMAALLSSSSPKCTAC 56

Query: 173 RTSISST 179
           + SI   
Sbjct: 57  QESIVKD 63

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 42.0 bits (99), Expect = 9e-06
 Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 5/50 (10%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN--CPLCRTSISS 178
           C +C +   +     +IP CG+ +  +CI   L  +    CP C  +  S
Sbjct: 18  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 64

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 43.8 bits (103), Expect = 1e-05
 Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISST 179
           C +CL+  +          C H F  DCI   L+S N  CP CR  + S 
Sbjct: 57  CPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 43.0 bits (101), Expect = 2e-05
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 5/50 (10%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSISS 178
           +C  C           I   C H    DC+D   ++    CP CR  +  
Sbjct: 54  QCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR 99

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 41.8 bits (98), Expect = 3e-05
 Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 5/57 (8%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTTFL 187
           C+ C N  +E      +  C H+F  +C+   + +   CP+C T            L
Sbjct: 25  CSRCTNILRE---PVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWIQDLKINRQL 76

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 5/50 (10%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN--CPLCRTSISS 178
           C +C +   +     +IP CG+ +  +CI   L  +    CP C  +  S
Sbjct: 16  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 7/53 (13%)

Query: 125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS 177
           E  F  C  C  E +     +++P C H     C++    S   CP+C+    
Sbjct: 3   EFQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLE---ASGMQCPICQAPWP 48

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 5/59 (8%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISSTTTTPTTFL 187
           EC +CL   +E     +   CGH F   CI   ++ +   CP+    +      P  F 
Sbjct: 20  ECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFA 74

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 11/54 (20%), Positives = 17/54 (31%), Gaps = 11/54 (20%)

Query: 130 ECAVCLNEFQENEKLRIIP---NCGHVFHIDCIDVWLQSNA-NCPLCRTSISST 179
            C  C     +       P    C H    DC+    ++   +CP CR  +   
Sbjct: 80  MCVCCQELVYQ-------PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN 126

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 39.7 bits (92), Expect = 3e-04
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 5/59 (8%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSISSTTTTPTTFL 187
           EC +CL   +E     +   CGH F   CI   ++   + CP+    +      P  F 
Sbjct: 20  ECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFA 74

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 36.7 bits (85), Expect = 7e-04
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 3/50 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFH-IDCIDVWLQSNANCPLCRTSISS 178
            C++C       +   I    GH+     C     ++ A+CP+C+  I  
Sbjct: 9   PCSLCEKR--PRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL 56

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 37.5 bits (86), Expect = 8e-04
 Identities = 14/54 (25%), Positives = 19/54 (35%), Gaps = 4/54 (7%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWL-QSNANCPLCRTSISSTTTTP 183
           C  C          R+IP C HVF  DC  +   + +  CP C   +       
Sbjct: 4   CDKCGLPI--KVYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCT 54

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 37.6 bits (87), Expect = 9e-04
 Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 5/51 (9%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISST 179
            C +C +   +     +  +C H+F   CI   L+   + CP CR     T
Sbjct: 25  SCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	337
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.66
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.59
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.49
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.47
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.46
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.45
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.42
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.37
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.34
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.33
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.31
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.3
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.29
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.26
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.25
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.24
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.21
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.2
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.2
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.18
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.14
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.13
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.12
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.11
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.1
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.05
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.03
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.02
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.02
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.02
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.99
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.98
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.97
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.96
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.96
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.94
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.94
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.93
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.93
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.88
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.84
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.81
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.8
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.78
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.78
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.76
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.75
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.73
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.73
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.72
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.7
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.68
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.67
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.65
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.62
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.61
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.51
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.51
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.46
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.46
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.45
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.43
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.39
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.32
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.27
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.11
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.1
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.06
3nw0_A	238	Non-structural maintenance of chromosomes element	97.91
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.79
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.34
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	93.32
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	90.94
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	85.77
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	85.05
1we9_A	64	PHD finger family protein; structural genomics, PH	83.94
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	83.84
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	81.47
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	80.34

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=99.66  E-value=1.1e-16  Score=126.43  Aligned_cols=79  Identities=24%  Similarity=0.603  Sum_probs=68.7

Q ss_pred             chhcCCCCHHHHHhCCceeeccccccccCCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCccccc
Q 042750           96 ALETRGLDEAVIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTS  175 (337)
Q Consensus        96 ~~~~~gl~~~~i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~  175 (337)
                      .....|++++.|+.||.+++....   .....+..|+||++.|..++.++.+| |+|.||..||..|+..+.+||+||..
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~---~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDH---GAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTC---SSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             CcCCCCCCHHHHHhCCCeeecccc---cccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCcc
Confidence            446789999999999999987764   22345678999999999999999998 99999999999999999999999998


Q ss_pred             CCC
Q 042750          176 ISS  178 (337)
Q Consensus       176 l~~  178 (337)
                      +..
T Consensus        87 ~~~   89 (91)
T 2l0b_A           87 FPP   89 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            853

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.59  E-value=2.6e-16  Score=119.37  Aligned_cols=68  Identities=32%  Similarity=0.899  Sum_probs=58.0

Q ss_pred             HHHhCCceeeccccccccCCCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          106 VIRAIPIFQFKKKASRDFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       106 ~i~~lP~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .++.||.+++....    ......+|+||+++|..++.++.+| |+|.||..||..|+..+.+||+||+.+..
T Consensus         5 ~i~~lp~~~~~~~~----~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A            5 SSGQLPSYRFNPNN----HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CCSSCCCEEBCSSS----CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             hHhhCCcEEecCcc----ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            35678988887653    2344578999999999999899998 99999999999999999999999998854

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=99.49  E-value=1.6e-14  Score=102.73  Aligned_cols=51  Identities=49%  Similarity=1.189  Sum_probs=46.3

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      +..+|+||++.|..++.+..++.|+|.||..||.+|++.+.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            346899999999998888888779999999999999999999999998873

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=99.47  E-value=4.2e-14  Score=105.19  Aligned_cols=54  Identities=41%  Similarity=0.999  Sum_probs=48.0

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ......|+||++.|..++.+..++ |+|.||..||..|+..+.+||+||..+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345578999999998888888898 999999999999999999999999998553

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.46  E-value=6.6e-14  Score=105.51  Aligned_cols=53  Identities=38%  Similarity=0.893  Sum_probs=47.7

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ..+.+|+||++.|..+..+.+++ |+|.||..||..|+..+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            44578999999999988888898 999999999999999999999999998553

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.45  E-value=6.8e-14  Score=106.50  Aligned_cols=56  Identities=39%  Similarity=0.921  Sum_probs=49.4

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTT  181 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~  181 (337)
                      .....+|+||++.|..+..+..++ |+|.||..||..|+..+.+||+||..+.....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            345678999999999888888898 99999999999999999999999999866543

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.42  E-value=9e-14  Score=107.43  Aligned_cols=51  Identities=27%  Similarity=0.779  Sum_probs=42.2

Q ss_pred             CCccccccccccc-----------CceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQE-----------NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~-----------~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      +..|+||++.|..           ++.+++++.|+|.||.+||++||..+.+||+||+.+..
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            3568888888854           45566676799999999999999999999999998753

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.37  E-value=3.7e-13  Score=95.38  Aligned_cols=50  Identities=30%  Similarity=0.839  Sum_probs=43.0

Q ss_pred             CCCcccccccccccCc-eeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENE-KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ...+|+||++.|..++ .+..++ |+|.||..||.+|+..+.+||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4578999999996644 566676 9999999999999999999999998874

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=99.34  E-value=1.4e-12  Score=106.16  Aligned_cols=51  Identities=24%  Similarity=0.646  Sum_probs=41.1

Q ss_pred             CCcccccccccccCc---------------eeEecCCCCccccHHhHHHHH-----hcCCCCCcccccCCCC
Q 042750          128 FCECAVCLNEFQENE---------------KLRIIPNCGHVFHIDCIDVWL-----QSNANCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl-----~~~~~CPlCR~~l~~~  179 (337)
                      +.+|+||++.|..+.               .++.++ |+|.||..||..|+     ..+.+||+||+.+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            468999999997643               334666 99999999999999     4467899999988654

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.33  E-value=8.5e-13  Score=98.22  Aligned_cols=55  Identities=27%  Similarity=0.693  Sum_probs=45.7

Q ss_pred             CCCCcccccccccccC----ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCC
Q 042750          126 RSFCECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTT  181 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~  181 (337)
                      .++.+|+||++.|...    ..+..++ |||.||..||.+|+..+.+||+||..+.....
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            3457899999999763    4456676 99999999999999999999999999875443

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.31  E-value=1.4e-12  Score=96.28  Aligned_cols=51  Identities=29%  Similarity=0.762  Sum_probs=43.4

Q ss_pred             CCCCcccccccccccC----ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .....|+||++.|...    ..+..++ |||.||..||..|+..+.+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            4457899999999763    3446676 9999999999999999999999999874

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.30  E-value=1.4e-12  Score=106.08  Aligned_cols=50  Identities=30%  Similarity=0.675  Sum_probs=42.2

Q ss_pred             CCCcccccccccccCc---------------eeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENE---------------KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .+..|+||++.|....               .++.++ |+|.||..||+.||..+.+||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            3578999999997541               355666 9999999999999999999999999864

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=99.29  E-value=1.2e-12  Score=95.22  Aligned_cols=52  Identities=29%  Similarity=0.768  Sum_probs=44.0

Q ss_pred             CCcccccccccccC----ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          128 FCECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      +.+|+||++.+...    +.+..++ |||.||..||.+|+..+.+||+||..+....
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            46899999999763    3456676 9999999999999999999999999986543

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=99.26  E-value=5e-12  Score=93.45  Aligned_cols=48  Identities=33%  Similarity=0.875  Sum_probs=41.8

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...|+||++.+...  ...++ |||.||..||..|+..+.+||+||..+..
T Consensus         5 ~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            5 AERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            46899999998653  46777 99999999999999999999999998853

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.25  E-value=4.2e-12  Score=98.26  Aligned_cols=54  Identities=31%  Similarity=0.701  Sum_probs=44.6

Q ss_pred             CCCCcccccccccccCceeEecCCCC-----ccccHHhHHHHHhcC--CCCCcccccCCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCG-----HVFHIDCIDVWLQSN--ANCPLCRTSISSTTT  181 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~~--~~CPlCR~~l~~~~~  181 (337)
                      .....|.||+++|..++.+ ++| |+     |.||.+||++||..+  .+||+||..+.....
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~   73 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK   73 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcc
Confidence            3457899999999877766 588 86     999999999999875  489999999866543

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.24  E-value=3.3e-12  Score=95.09  Aligned_cols=50  Identities=34%  Similarity=0.925  Sum_probs=43.2

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      .....|+||++.+..    ..++ |+|.||..||..|+..+.+||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            345789999999876    5677 9999999999999999999999999986544

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.21  E-value=6.5e-12  Score=94.03  Aligned_cols=49  Identities=33%  Similarity=0.644  Sum_probs=42.1

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .....|+||++.+.+   ...++ |+|.||..||..|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            445789999999865   45567 99999999999999999999999998854

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=1.8e-11  Score=91.80  Aligned_cols=52  Identities=23%  Similarity=0.560  Sum_probs=42.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      .....|+||++.|.+.  +.+++ |+|.||..||..|+..+.+||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           13 TPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             CCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            3457899999998763  33346 9999999999999999999999999986543

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=2.5e-11  Score=93.77  Aligned_cols=53  Identities=30%  Similarity=0.806  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccCce-eEecCCCCccccHHhHHHHHhcC---CCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEK-LRIIPNCGHVFHIDCIDVWLQSN---ANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~~~---~~CPlCR~~l~~~  179 (337)
                      ....+|+||++.|...+. ...++ |||.||..||..|+..+   .+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             cCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            445789999999987664 66777 99999999999999875   7899999987654

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=99.18  E-value=2.6e-12  Score=106.36  Aligned_cols=52  Identities=31%  Similarity=0.637  Sum_probs=0.8

Q ss_pred             CCCcccccccccccC-------------c-eeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQEN-------------E-KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~-------------~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .+..|+||+++|...             + ...+++.|+|.||..||+.||..+.+||+||+++..
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            346899999999752             1 122222499999999999999999999999998743

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.14  E-value=3.3e-11  Score=92.33  Aligned_cols=48  Identities=21%  Similarity=0.529  Sum_probs=41.5

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .....|+||++.|..   ..+++ |||.||..||..|+....+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            445789999999865   34577 9999999999999999999999999884

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.13  E-value=4.9e-11  Score=90.95  Aligned_cols=51  Identities=24%  Similarity=0.638  Sum_probs=42.6

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC--CCCCcccccCCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN--ANCPLCRTSISSTT  180 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CPlCR~~l~~~~  180 (337)
                      ...+|+||++.+..++...   .|+|.||.+||.+||+.+  .+||+||+.+....
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            3478999999998765443   599999999999999887  88999999886543

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.12  E-value=6.2e-11  Score=88.61  Aligned_cols=50  Identities=34%  Similarity=0.740  Sum_probs=41.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHh---cCCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ---SNANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~---~~~~CPlCR~~l~~~  179 (337)
                      .....|+||++.|..   ...++ |||.||..||..|+.   .+..||+||..+...
T Consensus        18 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           18 QEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             ccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            445789999999875   44566 999999999999996   456899999988543

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.11  E-value=2.6e-11  Score=102.40  Aligned_cols=45  Identities=33%  Similarity=0.920  Sum_probs=40.3

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ..|+||++.|..   ..++| |||.||..||..|+..+.+||+||..+.
T Consensus        54 ~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   98 (138)
T 4ayc_A           54 LQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIK   98 (138)
T ss_dssp             SBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred             CCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCC
Confidence            579999999865   45677 9999999999999999999999999884

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.10  E-value=6.1e-11  Score=89.55  Aligned_cols=50  Identities=26%  Similarity=0.618  Sum_probs=40.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC--CCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN--ANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CPlCR~~l~~  178 (337)
                      .....|+||++.|...   ..++.|||.||..||..|+..+  .+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           13 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            3457899999999763   3466699999999999999865  689999997543

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=8.1e-11  Score=86.63  Aligned_cols=50  Identities=26%  Similarity=0.571  Sum_probs=40.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHh-cCCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlCR~~l~~~  179 (337)
                      .....|+||++.+.+..   .++ |||.||..||..|+. .+.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CcCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            34578999999987643   356 999999999999994 567899999998653

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=99.05  E-value=7.8e-11  Score=97.19  Aligned_cols=53  Identities=28%  Similarity=0.733  Sum_probs=44.5

Q ss_pred             CCCcccccccccccC----ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCC
Q 042750          127 SFCECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTT  180 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~  180 (337)
                      +..+|+||++.|.+.    ..+..++ |||.||..||.+|+..+.+||+||..+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            457899999999764    4456776 9999999999999999999999999885443

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.05  E-value=1.6e-10  Score=87.65  Aligned_cols=49  Identities=18%  Similarity=0.588  Sum_probs=41.5

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      .....|+||++.|.+   ..+++ |||.||..||..|+.. +.+||+||..+..
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            445789999999876   34567 9999999999999987 7889999998854

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.03  E-value=1.4e-10  Score=85.07  Aligned_cols=52  Identities=23%  Similarity=0.605  Sum_probs=41.2

Q ss_pred             CCccccccc-ccccCcee-EecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCC
Q 042750          128 FCECAVCLN-EFQENEKL-RIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~-~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~  180 (337)
                      +..|+||++ .|...... ..++ |||.||..||..|+.. ...||+||..+....
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            468999999 77776543 3455 9999999999999765 467999999986544

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.02  E-value=2.2e-10  Score=87.42  Aligned_cols=50  Identities=30%  Similarity=0.695  Sum_probs=41.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc------CCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS------NANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~------~~~CPlCR~~l~~~  179 (337)
                      .....|+||++.|...   ..++ |+|.||..||..|+..      ...||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             ccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            3457899999998764   3577 9999999999999987      67899999988653

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.02  E-value=2.5e-10  Score=87.12  Aligned_cols=50  Identities=26%  Similarity=0.712  Sum_probs=41.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc------CCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS------NANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~------~~~CPlCR~~l~~~  179 (337)
                      .....|+||++.|...   ..++ |||.||..||..|+..      ...||+||..+...
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             cCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            3457899999998763   3456 9999999999999987      77899999998653

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.02  E-value=1.2e-10  Score=93.03  Aligned_cols=47  Identities=28%  Similarity=0.862  Sum_probs=40.0

Q ss_pred             CCcccccccccccCceeEe-cCCCCccccHHhHHHHHhcC-CCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRI-IPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~-lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~  178 (337)
                      ...|+||++.|..   ... ++ |||.||..||..|+... .+||+||..+..
T Consensus        22 ~~~C~IC~~~~~~---p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           22 VFRCFICMEKLRD---ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCccCCccccC---ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            4689999999965   344 66 99999999999999987 689999998843

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.99  E-value=3.2e-10  Score=82.57  Aligned_cols=43  Identities=35%  Similarity=0.776  Sum_probs=35.9

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHh---cCCCCCcc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ---SNANCPLC  172 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~---~~~~CPlC  172 (337)
                      ..+..|+||++.|.+   ..+++ |||.||..||..|+.   .+.+||+|
T Consensus        18 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            445789999999876   34566 999999999999998   45689998

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=98.98  E-value=2.7e-10  Score=90.46  Aligned_cols=48  Identities=25%  Similarity=0.712  Sum_probs=40.1

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...|+||++.|...  +..++ |||.||..||..|+..+.+||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            36899999998762  33335 99999999999999998999999998743

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=98.97  E-value=2.9e-10  Score=91.73  Aligned_cols=48  Identities=29%  Similarity=0.701  Sum_probs=40.7

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ...|+||++.|.+  .+..++ |||.||..||..|+..+.+||+||..+..
T Consensus        15 ~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           15 HLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             cCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            4689999999865  243346 99999999999999999999999998854

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=98.96  E-value=1.1e-10  Score=88.44  Aligned_cols=49  Identities=31%  Similarity=0.673  Sum_probs=41.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-------CCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-------NANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-------~~~CPlCR~~l~~  178 (337)
                      .....|+||++.|.+.   ..++ |||.||..||..|+..       ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            4457899999998764   3467 9999999999999976       5679999998865

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.96  E-value=3.5e-10  Score=93.27  Aligned_cols=52  Identities=29%  Similarity=0.748  Sum_probs=43.4

Q ss_pred             CCCcccccccccccC----ceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          127 SFCECAVCLNEFQEN----EKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      +...|+||++.|...    .....++ |||.||..||++|+..+.+||+||..+...
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            457899999999763    3345666 999999999999999999999999998543

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=98.94  E-value=4.5e-10  Score=97.30  Aligned_cols=48  Identities=35%  Similarity=0.737  Sum_probs=40.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      ...|+||++.|..  .+..++ |||.||..||..|+.. +.+||+||..+..
T Consensus        54 ~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            4689999999876  344446 9999999999999987 7789999998843

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=98.94  E-value=4.8e-10  Score=92.65  Aligned_cols=47  Identities=23%  Similarity=0.561  Sum_probs=39.9

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCC-CCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CPlCR~~l~~  178 (337)
                      ...|+||++.|..   ...++ |||.||..||..|+..+. +||+||..+..
T Consensus        52 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            3689999999975   44567 999999999999998654 89999999855

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=4.8e-10  Score=79.86  Aligned_cols=43  Identities=40%  Similarity=0.959  Sum_probs=35.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHH---hcCCCCCcc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWL---QSNANCPLC  172 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl---~~~~~CPlC  172 (337)
                      .....|+||++.+.+.   ..++ |||.||..||..|+   ..+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3457899999999774   3466 99999999999995   456789998

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=98.93  E-value=5.6e-10  Score=87.24  Aligned_cols=48  Identities=25%  Similarity=0.635  Sum_probs=39.7

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC--CCCCcccccC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN--ANCPLCRTSI  176 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CPlCR~~l  176 (337)
                      ..+..|+||++.|.+.   ..++.|||.||..||..|+...  .+||+||..+
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            4557899999999763   4565599999999999999753  5899999886

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.88  E-value=9.1e-10  Score=88.79  Aligned_cols=46  Identities=33%  Similarity=0.783  Sum_probs=38.7

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCC---CCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA---NCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~---~CPlCR~~l~~  178 (337)
                      ..|+||++.|...   ..++ |||.||..||..|+..+.   +||+||..+..
T Consensus        22 ~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            5899999998764   3456 999999999999998654   89999998754

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=98.84  E-value=1.7e-09  Score=92.88  Aligned_cols=48  Identities=21%  Similarity=0.515  Sum_probs=40.5

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCC-CCCcccccCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CPlCR~~l~~~  179 (337)
                      ...|+||++.|..   ..+++ |||.||..||..|+.... +||+||..+...
T Consensus        78 ~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            3689999999866   34477 999999999999998754 799999998654

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.81  E-value=2.2e-09  Score=79.04  Aligned_cols=47  Identities=26%  Similarity=0.610  Sum_probs=39.5

Q ss_pred             CCCcccccccccccCceeEec--CCCCcc-ccHHhHHHHHhcCCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENEKLRII--PNCGHV-FHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~l--p~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ++.+|.||++.+.+   ...+  | |||. |+..|+..|...+..||+||+.+.
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34689999998655   3344  8 9999 899999999998899999999884

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.80  E-value=2e-09  Score=88.35  Aligned_cols=49  Identities=31%  Similarity=0.649  Sum_probs=40.9

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCC-CCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CPlCR~~l~~  178 (337)
                      .....|+||++.+...   ..++ |||.||..||..|+.... +||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            3457899999998763   4566 999999999999998765 89999998854

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=98.78  E-value=9.3e-10  Score=89.64  Aligned_cols=46  Identities=28%  Similarity=0.832  Sum_probs=39.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~  177 (337)
                      +..|+||++.|..   ...++ |||.||..||..|+.. +.+||+||..+.
T Consensus        15 ~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           15 ECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            4689999999875   34567 9999999999999976 668999999884

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=98.78  E-value=2.7e-09  Score=87.00  Aligned_cols=47  Identities=26%  Similarity=0.527  Sum_probs=39.9

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      ...|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||..+..
T Consensus        23 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            3689999999865   34466 9999999999999987 7789999998854

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.76  E-value=4.9e-09  Score=81.49  Aligned_cols=48  Identities=15%  Similarity=0.128  Sum_probs=42.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .....|+||++.|.+   ..+++ |||.|+..||..|+..+.+||+|+..+.
T Consensus        12 p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~   59 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLT   59 (85)
T ss_dssp             CTTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             chheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCCC
Confidence            345889999999977   45677 9999999999999998899999998874

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.75  E-value=4e-09  Score=77.45  Aligned_cols=50  Identities=20%  Similarity=0.533  Sum_probs=39.7

Q ss_pred             CCCCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .....|.||++.+.+. .+..+| |||. |+..|+..|...+..||+||+++.
T Consensus         5 ~~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3346899999986442 122347 9998 999999999988889999999884

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.73  E-value=6.1e-09  Score=102.14  Aligned_cols=48  Identities=33%  Similarity=0.969  Sum_probs=41.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHh-cCCCCCcccccCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CPlCR~~l~~~  179 (337)
                      ..+|+||++.+..   ...+| |||.||..||..|+. .+.+||+||..+...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3689999999855   56677 999999999999998 678899999988553

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=98.73  E-value=6.4e-09  Score=83.45  Aligned_cols=49  Identities=12%  Similarity=0.145  Sum_probs=42.5

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .....|+||++.|.+   ..+++ |||.|+..||..|+..+.+||+|+.++..
T Consensus        27 p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            345789999999977   45677 99999999999999988999999988754

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=98.72  E-value=2.8e-09  Score=102.52  Aligned_cols=53  Identities=19%  Similarity=0.593  Sum_probs=40.8

Q ss_pred             CCCCcccccccccccCcee----EecCCCCccccHHhHHHHHhcC-----------CCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKL----RIIPNCGHVFHIDCIDVWLQSN-----------ANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~----~~lp~C~H~FH~~Ci~~Wl~~~-----------~~CPlCR~~l~~  178 (337)
                      ....+|+||++.+..+..+    ...+.|+|.||..||.+||++.           .+||.||.++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            4567899999999873322    2233699999999999999752           359999998853

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=98.70  E-value=1e-08  Score=81.99  Aligned_cols=49  Identities=12%  Similarity=0.108  Sum_probs=42.1

Q ss_pred             CCCCcccccccccccCceeEecCCCC-ccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCG-HVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~-H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..+..|+||++.|.+   ..+++ || |.|+..||..|+..+.+||+||..+..
T Consensus        20 p~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            345789999999977   45577 99 999999999999988899999988853

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.68  E-value=1.7e-08  Score=77.40  Aligned_cols=54  Identities=20%  Similarity=0.468  Sum_probs=40.5

Q ss_pred             CCCCcccccccccccCce-eEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCC
Q 042750          126 RSFCECAVCLNEFQENEK-LRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTT  180 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~  180 (337)
                      .++.+|+||++.+...+. +..++ |||.||..|+..|+.. +..||+||+.+....
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            445789999999865432 22233 9999999999998753 567999999986543

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=98.67  E-value=6.7e-09  Score=88.29  Aligned_cols=49  Identities=24%  Similarity=0.472  Sum_probs=40.7

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCC-CCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CPlCR~~l~~  178 (337)
                      .....|+||++.|.+.   ..++ |||.||..||..|+.... +||+||.++..
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            4457899999999764   4466 999999999999998654 89999998743

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.65  E-value=5.9e-09  Score=74.54  Aligned_cols=47  Identities=23%  Similarity=0.672  Sum_probs=38.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      .+...|+||++.|...   .+++ |||.||..||..|   ...||+||..+...
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            3457899999999764   5677 9999999999884   56899999988543

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.62  E-value=8e-09  Score=84.55  Aligned_cols=44  Identities=27%  Similarity=0.730  Sum_probs=37.6

Q ss_pred             CCcccccccccccCceeEec-CCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRII-PNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~l-p~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      ...|+||++.|...   ..+ + |||.||..||..|+.  ..||+||..+.
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCS
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCc
Confidence            46899999999763   445 6 999999999999987  78999999874

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.61  E-value=1.1e-08  Score=77.25  Aligned_cols=43  Identities=28%  Similarity=0.756  Sum_probs=36.7

Q ss_pred             CCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      +..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            3579999999765   56678 9999 999999999    789999998853

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.51  E-value=5.9e-08  Score=76.62  Aligned_cols=47  Identities=28%  Similarity=0.520  Sum_probs=38.0

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC------CCCCc--cccc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN------ANCPL--CRTS  175 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~------~~CPl--CR~~  175 (337)
                      .....|+||++.|.+   ..+++.|||.|+..||..|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            345789999999976   34454599999999999999764      48999  9866

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.51  E-value=5.2e-08  Score=89.80  Aligned_cols=48  Identities=19%  Similarity=0.308  Sum_probs=40.5

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~  177 (337)
                      .....|+||++.|.+   ..+++ |||.||..||..|+.. +.+||+||.++.
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~  254 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLT  254 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCc
Confidence            346789999999977   45677 9999999999999986 445999998884

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.46  E-value=9e-08  Score=75.23  Aligned_cols=48  Identities=23%  Similarity=0.646  Sum_probs=39.5

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc--------CCCCCc--cccc
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--------NANCPL--CRTS  175 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CPl--CR~~  175 (337)
                      ...+|+||++++...+.+...+ |||.||.+|+..|+..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3578999999998776666666 9999999999999863        236999  9877

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.46  E-value=1e-07  Score=69.45  Aligned_cols=48  Identities=23%  Similarity=0.634  Sum_probs=36.3

Q ss_pred             CCCcccccccccccCceeEecC-CCCc---cccHHhHHHHHhc--CCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIP-NCGH---VFHIDCIDVWLQS--NANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~~--~~~CPlCR~~l~  177 (337)
                      +...|.||+++.  ++.+ ++| .|.|   .||..||.+|+..  +.+||+|+..+.
T Consensus         5 ~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            446899999983  3334 577 2334   8999999999964  678999998763

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.45  E-value=7.7e-08  Score=83.43  Aligned_cols=49  Identities=31%  Similarity=0.640  Sum_probs=40.6

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC-CCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~  178 (337)
                      .....|+||++.|...   ..++ |||.||..||..|+... .+||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            3457899999998763   4566 99999999999999764 489999988854

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.43  E-value=1.6e-07  Score=69.89  Aligned_cols=46  Identities=28%  Similarity=0.734  Sum_probs=37.8

Q ss_pred             CCCCCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..+...|.||++.+.+   +..+| |+|. |+..|+..    ...||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            3445789999998654   67788 9999 99999984    4789999998855

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=1.2e-07  Score=71.61  Aligned_cols=42  Identities=29%  Similarity=0.808  Sum_probs=34.9

Q ss_pred             CcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..|+||++.+.+   ...+| |||. ||..|+..    ...||+||..+..
T Consensus        26 ~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           26 KLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            579999999755   55677 9999 99999965    3789999998854

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.32  E-value=2.5e-07  Score=81.70  Aligned_cols=49  Identities=18%  Similarity=0.276  Sum_probs=40.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC-CCCCcccccCCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISS  178 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~  178 (337)
                      .....|+||++.|.+   ..++| |||.|+..||..|+..+ .+||+|+.++..
T Consensus       104 p~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            456889999999976   45567 99999999999999864 469999988743

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.27  E-value=2e-07  Score=71.41  Aligned_cols=42  Identities=31%  Similarity=0.758  Sum_probs=36.0

Q ss_pred             CcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..|.||++.+.+   ...+| |||. |+..|+..|    ..||+||..+..
T Consensus        19 ~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           19 MLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             TBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            579999998755   66788 9999 999999987    489999998855

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.11  E-value=1.4e-06  Score=63.61  Aligned_cols=48  Identities=15%  Similarity=0.310  Sum_probs=40.4

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      ..|+||++.+.+   ..+++.|||+|...||.+|+..+.+||+++.++...
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            679999999975   345523999999999999999888999999888543

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.10  E-value=6.5e-07  Score=86.66  Aligned_cols=43  Identities=33%  Similarity=0.828  Sum_probs=37.0

Q ss_pred             CCcccccccccccCceeEecCCCCcc-ccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHV-FHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      +..|+||++.+..   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus       295 ~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            4689999999865   56678 9999 999999998    689999998853

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.06  E-value=1.5e-06  Score=80.94  Aligned_cols=49  Identities=29%  Similarity=0.596  Sum_probs=39.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC--CCCCc--ccccCC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN--ANCPL--CRTSIS  177 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CPl--CR~~l~  177 (337)
                      .....|+||++.|.++  ++... |||.|+..||..|+..+  .+||+  |+..+.
T Consensus       179 ~~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             ceeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            4457899999999664  44445 99999999999999764  46999  998773

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=97.91  E-value=9.2e-06  Score=74.73  Aligned_cols=50  Identities=26%  Similarity=0.662  Sum_probs=41.2

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCC--CCCcccccCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA--NCPLCRTSISST  179 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CPlCR~~l~~~  179 (337)
                      ....|.||.+....+...   ++|+|.||..|+..|++.+.  .||.|+..+...
T Consensus       179 ~i~~C~iC~~iv~~g~~C---~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            357899999998876433   45999999999999998754  799999988654

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.79  E-value=1.2e-05  Score=64.05  Aligned_cols=46  Identities=30%  Similarity=0.634  Sum_probs=37.5

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      -|.+|--.+.  ...+++| |+|+|+.+|+..|.+. .++||.|+.++..
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            4788866653  4688899 9999999999999854 6789999998844

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=93.32  E-value=0.067  Score=39.22  Aligned_cols=46  Identities=22%  Similarity=0.448  Sum_probs=32.8

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC----CCCCcccccC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN----ANCPLCRTSI  176 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CPlCR~~l  176 (337)
                      ....|.||.+.   ++ +..--.|...||..|++..|...    -.||.|....
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            34679999753   33 44444699999999999887653    2499997543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=90.94  E-value=0.15  Score=39.53  Aligned_cols=34  Identities=12%  Similarity=0.354  Sum_probs=24.6

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHH
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVW  162 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  162 (337)
                      +..|.||++.+.......-+. |+|.|+..|+..|
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            357999998753332232355 9999999999984

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=85.77  E-value=0.66  Score=35.68  Aligned_cols=35  Identities=23%  Similarity=0.415  Sum_probs=23.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHH
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVW  162 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  162 (337)
                      ..+..|.||- .|..++...-- .|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~-~~t~~~l~pCR-vC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCCcccCccc-cccccceeccc-cccccccHhhcccc
Confidence            4567899994 33333322111 48999999999996

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=85.05  E-value=0.51  Score=33.70  Aligned_cols=45  Identities=22%  Similarity=0.626  Sum_probs=31.1

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc----CCCCCcccc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----NANCPLCRT  174 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CPlCR~  174 (337)
                      ..+..|.||...   + .+..-..|...||..|+..-+..    .-.||.|+.
T Consensus         9 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            445789999873   3 34444468889999999875432    224999965

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=83.94  E-value=0.24  Score=35.48  Aligned_cols=49  Identities=22%  Similarity=0.497  Sum_probs=33.4

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHh-----cCCCCCcccc
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-----SNANCPLCRT  174 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----~~~~CPlCR~  174 (337)
                      .+...|+||...+..+...+.--.|..-||..|+..-..     ..-.||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            344679999998865444444446888999999864321     2455999965

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=83.84  E-value=0.29  Score=43.28  Aligned_cols=47  Identities=34%  Similarity=0.519  Sum_probs=32.8

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc----CCCCCcccccC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----NANCPLCRTSI  176 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CPlCR~~l  176 (337)
                      ..+..|.+|...    ..+.....|...||..|+...+..    .-.||.|+..-
T Consensus         5 ~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            5 PNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            345679999753    335455568999999999876643    23499997643

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=81.47  E-value=0.36  Score=41.79  Aligned_cols=45  Identities=36%  Similarity=0.588  Sum_probs=31.7

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhc----CCCCCcccccC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----NANCPLCRTSI  176 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CPlCR~~l  176 (337)
                      +..|.||...   ++ +..-..|.-.||..|+..-+..    .-.||.|+..-
T Consensus         4 ~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            4 EDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             CSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            4679999854   44 4444468899999998776543    23499998654

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=80.34  E-value=0.49  Score=33.77  Aligned_cols=47  Identities=28%  Similarity=0.590  Sum_probs=30.9

Q ss_pred             CCCCcccccccccccCceeEecCCCCccccHHhHHHHHhc----CCCCCcccccC
Q 042750          126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----NANCPLCRTSI  176 (337)
Q Consensus       126 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CPlCR~~l  176 (337)
                      ..+..|.||...   ++ +..-..|...||..|+..-+..    .-.||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            445779999753   33 3333358889999999864433    22499997543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	337
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-20
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-14
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-11
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-10
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	4e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	7e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-05
d1we9a_	64	g.50.1.2 (A:) PHD finger protein At5g26210 {Thale	0.002
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.003

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 80.7 bits (199), Expect = 3e-20
 Identities = 25/47 (53%), Positives = 36/47 (76%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSI 176
           ECAVCL E ++ E+ R +P CGH FH +C+D+WL S++ CPLCR ++
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 65.7 bits (160), Expect = 1e-14
 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS 178
            C +CL +        +   C H F   CI  W++ N  CPLC+  + S
Sbjct: 7   RCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.4 bits (138), Expect = 7e-12
 Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 1/49 (2%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQ-SNANCPLCRTSIS 177
           EC +C+   + ++       CG+     C        N  CP CR    
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.7 bits (139), Expect = 1e-11
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 5/54 (9%)

Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSISST 179
           +F  C +C    ++   ++I P CGH+    C+  W +S    CP CR  I  T
Sbjct: 22  TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 71

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.6 bits (133), Expect = 5e-11
 Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 2/50 (4%)

Query: 130 ECAVCLNEFQENEKLRIIPN-CGHVFHIDCIDVWLQSNAN-CPLCRTSIS 177
            C  C      N  L+++ N CGH     C+D+     A  CP C T + 
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.9 bits (132), Expect = 6e-11
 Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 7/59 (11%)

Query: 125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTP 183
           E  F  C  C  E +     +++P C H     C++        CP+C+        TP
Sbjct: 3   EFQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADTP 54

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.1 bits (132), Expect = 1e-10
 Identities = 15/59 (25%), Positives = 19/59 (32%), Gaps = 14/59 (23%)

Query: 130 ECAVCLNEFQENEKLRIIPN--------------CGHVFHIDCIDVWLQSNANCPLCRT 174
            CA+C N   +                       C H FH  CI  WL++   CPL   
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.3 bits (116), Expect = 3e-08
 Identities = 14/84 (16%), Positives = 28/84 (33%), Gaps = 9/84 (10%)

Query: 122 DFGERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-----CPLCRTSI 176
           +    +     +  ++      +  +  C H FH+ C+     +        CP C+T  
Sbjct: 33  EKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY 92

Query: 177 SSTTTTPTTFLPFDRIIAPSSTPQ 200
              T T     P+ ++    S P 
Sbjct: 93  GEKTGTQ----PWGKMEVFRSGPS 112

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.5 bits (115), Expect = 3e-08
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 7/61 (11%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN---CPLCRTSISSTTTTPTTF 186
           EC +CL   +E     +   C H+F   C+   L        CPLC+  I+  +   +T 
Sbjct: 23  ECPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTR 78

Query: 187 L 187
            
Sbjct: 79  F 79

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 47.2 bits (111), Expect = 4e-08
 Identities = 10/50 (20%), Positives = 15/50 (30%), Gaps = 3/50 (6%)

Query: 131 CAVCLNEFQENEKLRIIP-NCGHVFHIDCIDVWLQSNAN--CPLCRTSIS 177
           C +C  E                  H  C+  WL  + N  C +C    +
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.5 bits (105), Expect = 7e-07
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 5/50 (10%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISST 179
           C +C +   +     +  +C H+F   CI   L+   + CP CR     T
Sbjct: 26  CQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT 71

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 3e-06
 Identities = 13/62 (20%), Positives = 21/62 (33%), Gaps = 5/62 (8%)

Query: 126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTPTT 185
                C+ C N  +E      +  C H+F  +C+   +     CP+C T           
Sbjct: 20  EKLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQDLKINR 74

Query: 186 FL 187
            L
Sbjct: 75  QL 76

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (94), Expect = 2e-05
 Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 9/52 (17%)

Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--------NANCPLCR 173
            C +CL E+   +   I   C  +F   C+  +++           +CP   
Sbjct: 7   GCKLCLGEYPVEQMTTI-AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.0 bits (90), Expect = 3e-05
 Identities = 7/53 (13%), Positives = 18/53 (33%), Gaps = 3/53 (5%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTTTP 183
           CA+     +      + P    +F    ++ +++   N P+    +S      
Sbjct: 3   CAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE 52

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 33.9 bits (77), Expect = 0.002
 Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 5/59 (8%)

Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-----CPLCRTSISSTT 180
           S  +C  C   +  +E       C   FH  C+ +      +     CP C      ++
Sbjct: 5   SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGPSS 63

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 33.9 bits (77), Expect = 0.003
 Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 5/58 (8%)

Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCRTSISSTTTTPTTFL 187
           C + L   ++     +I + G  +    I  WL +    CP  + ++     TP   L
Sbjct: 11  CPISLELMKD----PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVL 64

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	337
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.63
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.41
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.35
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.33
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.27
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.26
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.13
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.03
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.99
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.95
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.92
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.8
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.74
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.71
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.6
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.44
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	89.51
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	88.87
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	80.97
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	80.56

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.63  E-value=6.3e-17  Score=115.13  Aligned_cols=50  Identities=50%  Similarity=1.210  Sum_probs=46.2

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      +.+|+||+++|..++.+..++.|+|.||..||.+|++.+.+||+||++|.
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            46799999999999999888779999999999999999999999999874

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.41  E-value=8.7e-14  Score=102.50  Aligned_cols=48  Identities=33%  Similarity=0.870  Sum_probs=41.5

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .++|+||++.|.+  .++.++ |||.||..||.+|++.+.+||+||+++..
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            3679999999865  356677 99999999999999999999999998743

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=2.6e-13  Score=104.83  Aligned_cols=50  Identities=30%  Similarity=0.675  Sum_probs=41.5

Q ss_pred             CCCcccccccccccCc---------------eeEecCCCCccccHHhHHHHHhcCCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENE---------------KLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~  177 (337)
                      .+..|+||++.+....               .+..++ |+|.||.+||.+||+.+.+||+||+.+.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3467999999886532               355666 9999999999999999999999999874

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=1.1e-13  Score=96.83  Aligned_cols=48  Identities=21%  Similarity=0.491  Sum_probs=39.8

Q ss_pred             cccccccccccCcee-EecCCCCccccHHhHHHHHhcC-CCCCcccccCCC
Q 042750          130 ECAVCLNEFQENEKL-RIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISS  178 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~  178 (337)
                      +|+||+++|..++.. ..++ |||.||.+||++|++.+ .+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999999877654 3445 99999999999999864 469999998853

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=6.3e-13  Score=106.88  Aligned_cols=51  Identities=24%  Similarity=0.614  Sum_probs=39.8

Q ss_pred             CCcccccccccccC---------------ceeEecCCCCccccHHhHHHHHhc-----CCCCCcccccCCCC
Q 042750          128 FCECAVCLNEFQEN---------------EKLRIIPNCGHVFHIDCIDVWLQS-----NANCPLCRTSISST  179 (337)
Q Consensus       128 ~~~C~ICl~~~~~~---------------~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CPlCR~~l~~~  179 (337)
                      +.+|+||++.|...               ..+.+++ |+|.||..||..||..     +.+||+||+.+...
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            46799999998542               2345566 9999999999999975     34799999887554

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=1.3e-12  Score=95.41  Aligned_cols=52  Identities=29%  Similarity=0.622  Sum_probs=40.5

Q ss_pred             CCcccccccccccC-c-eeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCC
Q 042750          128 FCECAVCLNEFQEN-E-KLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTT  180 (337)
Q Consensus       128 ~~~C~ICl~~~~~~-~-~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~  180 (337)
                      +..|+||++++..+ + .+.+++ |||.||..||..|+.. +.+||+||+.+....
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            46899999987543 3 344555 9999999999999965 557999999885433

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=3.4e-12  Score=96.60  Aligned_cols=48  Identities=33%  Similarity=0.934  Sum_probs=40.9

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISSTT  180 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~~  180 (337)
                      ..|+||++.+..   .+++| |||.||..||..|+.. +.+||+||..|....
T Consensus        24 ~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          24 QLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            569999998754   67788 9999999999999975 567999999996544

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.13  E-value=6.7e-12  Score=88.83  Aligned_cols=47  Identities=15%  Similarity=0.323  Sum_probs=40.4

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCC
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISST  179 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~  179 (337)
                      .|+||++.|.+   ..+++.|||+||.+||.+|++.+.+||+||.++...
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            59999999865   344556999999999999999999999999988554

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=2.6e-11  Score=85.93  Aligned_cols=47  Identities=23%  Similarity=0.687  Sum_probs=38.9

Q ss_pred             CCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCCCCC
Q 042750          128 FCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISSTTT  181 (337)
Q Consensus       128 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~~~~  181 (337)
                      ..+|+||++.|.+   .+++| |||.||..||+.|   +.+||+||..+.....
T Consensus         6 ~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            3689999999976   45677 9999999999876   5679999999966544

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.99  E-value=1e-10  Score=89.82  Aligned_cols=47  Identities=28%  Similarity=0.564  Sum_probs=39.6

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISST  179 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~~  179 (337)
                      ..|+||++.|.+   ..+++ |||.||..||.+|++. +.+||+||.++...
T Consensus        24 l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          24 ISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             TBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            579999999865   56677 9999999999999975 45799999987543

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=1.4e-10  Score=91.38  Aligned_cols=46  Identities=33%  Similarity=0.783  Sum_probs=38.3

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCC---CCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA---NCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~---~CPlCR~~l~~  178 (337)
                      ..|+||++.|.+.   ..++ |||.||..||..|+....   .||+||..+..
T Consensus        22 l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            5799999999764   4467 999999999999997653   69999988743

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.92  E-value=1.8e-10  Score=82.15  Aligned_cols=51  Identities=20%  Similarity=0.430  Sum_probs=36.8

Q ss_pred             CCCcccccccccccCceeE-ecCCCCccccHHhHHHHHhc--CCCCCcccccCC
Q 042750          127 SFCECAVCLNEFQENEKLR-IIPNCGHVFHIDCIDVWLQS--NANCPLCRTSIS  177 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~-~lp~C~H~FH~~Ci~~Wl~~--~~~CPlCR~~l~  177 (337)
                      +...|.||++++....... ...+|+|.||..||..|+..  +.+||+||+.+.
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            4468999999876542210 11135699999999999954  567999998763

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=5.7e-10  Score=86.93  Aligned_cols=45  Identities=27%  Similarity=0.673  Sum_probs=36.7

Q ss_pred             CcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          129 CECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       129 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      ..|+||++.|...  +...+ |||.||..||..|+.  ..||.||..+..
T Consensus        23 l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCch
Confidence            5799999999764  33345 999999999999985  459999988754

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.74  E-value=3.8e-09  Score=78.84  Aligned_cols=49  Identities=18%  Similarity=0.602  Sum_probs=41.1

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcC-CCCCcccccCCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSN-ANCPLCRTSISST  179 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CPlCR~~l~~~  179 (337)
                      ++..|+||++.|.+.   .+++ |||.|+..||..|+..+ .+||.|+..+...
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            458899999999773   4677 99999999999999764 5699999988553

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.71  E-value=4.1e-09  Score=79.13  Aligned_cols=48  Identities=19%  Similarity=0.326  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc-CCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS-NANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CPlCR~~l~~  178 (337)
                      ++..|+||++.|.+.   .+++ |||.|+..||..|+.. +.+||+||..+..
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            457899999999773   4677 9999999999999975 5579999988743

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=1.5e-08  Score=79.07  Aligned_cols=49  Identities=12%  Similarity=0.119  Sum_probs=41.6

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhcCCCCCcccccCCC
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCRTSISS  178 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CPlCR~~l~~  178 (337)
                      .+..|+||++.|.+   ..+++.|+|.|+..||..||..+.+||+|+.++..
T Consensus        21 ~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          21 DEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             HHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            35889999999977   55677455689999999999999999999998854

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=4.2e-08  Score=75.34  Aligned_cols=46  Identities=22%  Similarity=0.595  Sum_probs=36.8

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc--------CCCCCccc
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS--------NANCPLCR  173 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CPlCR  173 (337)
                      +..+|+||++++...+.+..++ |+|.||.+|+..|+..        ..+||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            4578999999997767666665 9999999999999953        12499864

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=89.51  E-value=0.046  Score=37.64  Aligned_cols=49  Identities=22%  Similarity=0.525  Sum_probs=35.0

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHH---Hh--cCCCCCccccc
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVW---LQ--SNANCPLCRTS  175 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W---l~--~~~~CPlCR~~  175 (337)
                      ....|.||......++..+.-..|+..||..|+..-   ..  ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            446899999987776655555679999999998632   11  23459999754

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.87  E-value=0.075  Score=34.83  Aligned_cols=44  Identities=30%  Similarity=0.754  Sum_probs=30.1

Q ss_pred             cccccccccccCceeEecCCCCccccHHhHHHHHhcCC----CCCcccc
Q 042750          130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA----NCPLCRT  174 (337)
Q Consensus       130 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CPlCR~  174 (337)
                      .|.||-..-.. +.+..-..|...||..|++.-+....    .||.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            48888765433 33444556999999999988664322    3999974

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.97  E-value=0.16  Score=34.48  Aligned_cols=45  Identities=29%  Similarity=0.617  Sum_probs=30.2

Q ss_pred             CCCcccccccccccCceeEecCCCCccccHHhHHHHHhc----CCCCCccccc
Q 042750          127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQS----NANCPLCRTS  175 (337)
Q Consensus       127 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CPlCR~~  175 (337)
                      ....|.||.+.   ++ +..--.|.-.||..|+...+..    .-.||.|+..
T Consensus         8 ~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           8 HMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            34579999753   33 3333468899999999866543    2349999754

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.56  E-value=0.54  Score=34.13  Aligned_cols=36  Identities=22%  Similarity=0.434  Sum_probs=26.1

Q ss_pred             CCCCCcccccccccccCceeEecCCCCccccHHhHHHH
Q 042750          125 ERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVW  162 (337)
Q Consensus       125 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  162 (337)
                      ..++..|.|| +.|......- ---|+-+||..|+.+.
T Consensus        12 v~~D~mC~vC-~v~t~~~l~p-CRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Ccccccceec-ceeecchhhHHHHHHh
Confidence            3456789999 7776655431 1148899999999997